Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 149 of 207
Found at i:45692884 original size:20 final size:20
Alignment explanation
Indices: 45692855--45692911 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
45692845 CATAAATTTC
*
45692855 GTAATAAAATTATAAAAAAT
1 GTAAAAAAATTATAAAAAAT
* **
45692875 G-AAAAGAAA-TATCAAATTT
1 GTAAAA-AAATTATAAAAAAT
45692894 GTAAAAAAATTATAAAAA
1 GTAAAAAAATTATAAAAA
45692912 TTATCGTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:45692924 original size:26 final size:27
Alignment explanation
Indices: 45692895--45692958 Score: 96
Period size: 26 Copynumber: 2.4 Consensus size: 27
45692885 ATCAAATTTG
45692895 TAAAAAAATTATAAAAATTATCGT-TC
1 TAAAAAAATTATAAAAATTATCGTATC
*
45692921 TAAAATAATTATAAAAATTATCGTATC
1 TAAAAAAATTATAAAAATTATCGTATC
*
45692948 -AAAAGAATTAT
1 TAAAAAAATTAT
45692959 TTTATAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 33 0.94
27 2 0.06
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (27 bp):
TAAAAAAATTATAAAAATTATCGTATC
Found at i:45693158 original size:28 final size:30
Alignment explanation
Indices: 45693126--45693205 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 30
45693116 TATTTTATAT
*
45693126 TTTTTCTAATTTTTAATAAAATTTAAAT-A
1 TTTTTATAATTTTTAATAAAATTTAAATAA
*
45693155 -TTTTAT-ATTTTTATTAAAATTT-AATAA
1 TTTTTATAATTTTTAATAAAATTTAAATAA
*
45693182 TTTTTATAATTTTT-ATAAATTTTA
1 TTTTTATAATTTTTAATAAAATTTA
45693206 TTGAATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.07
27 16 0.37
28 18 0.42
29 6 0.14
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTATAATTTTTAATAAAATTTAAATAA
Found at i:45693176 original size:19 final size:19
Alignment explanation
Indices: 45693154--45693216 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
45693144 AAATTTAAAT
45693154 ATTTTAT-ATTTTTATTAAA
1 ATTTTATAATTTTTATT-AA
*
45693173 ATTTAATAATTTTTA-TAA
1 ATTTTATAATTTTTATTAA
* * *
45693191 TTTTTATAAATTTTATTGA
1 ATTTTATAATTTTTATTAA
45693210 ATTTTAT
1 ATTTTAT
45693217 TTTTTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 14 0.39
19 15 0.42
20 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTATAATTTTTATTAA
Found at i:45693178 original size:37 final size:38
Alignment explanation
Indices: 45693116--45693207 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 38
45693106 GGATATTTTT
**
45693116 TATTTTATATTTTT-TCTAATTTTTAATAAAATTTA-AA
1 TATTTTATATTTTTAT-TAAAATTTAATAAAATTTATAA
**
45693153 TATTTTATATTTTTATTAAAATTTAATAATTTTTATAA
1 TATTTTATATTTTTATTAAAATTTAATAAAATTTATAA
*
45693191 T-TTTTATAAATTTTATT
1 TATTTTAT-ATTTTTATT
45693208 GAATTTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 35 0.74
38 12 0.26
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (38 bp):
TATTTTATATTTTTATTAAAATTTAATAAAATTTATAA
Found at i:45693192 original size:9 final size:9
Alignment explanation
Indices: 45693118--45693231 Score: 67
Period size: 9 Copynumber: 12.4 Consensus size: 9
45693108 ATATTTTTTA
*
45693118 TTTTATATT
1 TTTTATAAT
*
45693127 TTTTCTAAT
1 TTTTATAAT
*
45693136 TTTTAATAAA
1 TTTT-ATAAT
*
45693146 ATTTA-AAT
1 TTTTATAAT
45693154 ATTTTAT-AT
1 -TTTTATAAT
*
45693163 TTTTATTAAAA
1 TTTTA-T-AAT
*
45693174 TTTAATAAT
1 TTTTATAAT
45693183 TTTTATAAT
1 TTTTATAAT
*
45693192 TTTTATAAA
1 TTTTATAAT
45693201 TTTTATTGAA-
1 TTTTA-T-AAT
45693211 TTTTAT--T
1 TTTTATAAT
45693218 TTTTATATAT
1 TTTTATA-AT
45693228 TTTT
1 TTTT
45693232 TCTGCATGTC
Statistics
Matches: 81, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
7 6 0.07
8 7 0.09
9 43 0.53
10 18 0.22
11 7 0.09
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:45693213 original size:37 final size:37
Alignment explanation
Indices: 45693137--45693231 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 37
45693127 TTTTCTAATT
** *
45693137 TTTAATAAAATTTA-AATATTTTATATTTTTATTAAAA
1 TTTAATAATTTTTATAAT-TTTTATAATTTTATTAAAA
*
45693174 TTTAATAATTTTTATAATTTTTATAAATTTTATT-GAA
1 TTTAATAATTTTTATAATTTTTAT-AATTTTATTAAAA
*
45693211 TTT--TATTTTTTATATATTTTT
1 TTTAATAATTTTTATA-ATTTTT
45693232 TCTGCATGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 10 0.20
36 6 0.12
37 23 0.46
38 11 0.22
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTAATAATTTTTATAATTTTTATAATTTTATTAAAA
Found at i:45693214 original size:28 final size:26
Alignment explanation
Indices: 45693134--45693230 Score: 90
Period size: 28 Copynumber: 3.6 Consensus size: 26
45693124 ATTTTTTCTA
*
45693134 ATTTTTAATAAAATTTAA-ATATTTTAT
1 ATTTTT-ATAAATTTTAATA-ATTTTAT
*
45693161 ATTTTTATTAAAATTTAATAATTTTTAT
1 ATTTTTA-TAAATTTTAATAA-TTTTAT
*
45693189 AATTTTTATAAATTTTATTGAATTTTAT
1 -ATTTTTATAAATTTTAAT-AATTTTAT
*
45693217 -TTTTTATATATTTT
1 ATTTTTATAAATTTT
45693231 TTCTGCATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
26 14 0.23
27 17 0.27
28 22 0.35
29 9 0.15
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (26 bp):
ATTTTTATAAATTTTAATAATTTTAT
Found at i:45712386 original size:42 final size:42
Alignment explanation
Indices: 45712267--45712537 Score: 334
Period size: 42 Copynumber: 6.4 Consensus size: 42
45712257 ACGTCGCAAA
* * * *
45712267 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAATAAACGCCACTAAAGATCATGTT
*
45712311 CTTTAGCGGCGCTAAGGAAATAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAATAAACGCCACTAAAGATCATGTT
*
45712354 CTTTAGTGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
*
45712396 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTA
1 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
* *
45712438 CTTTAGCGGCGCTAAGGAAAAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAATAAACGCCACTAAAGATCATGTT
* * *
45712481 CTTTAGCAGCGCTT-GTTCAA-AAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG--AAATAAACGCCACTAAAGA-TCA-TGTT
45712523 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
45712538 TTTCACAAAC
Statistics
Matches: 203, Mismatches: 17, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
41 3 0.01
42 112 0.55
43 76 0.37
44 12 0.06
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
Found at i:45712463 original size:85 final size:85
Alignment explanation
Indices: 45712266--45712494 Score: 343
Period size: 85 Copynumber: 2.7 Consensus size: 85
45712256 AACGTCGCAA
* * * *
45712266 ACTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAA
1 ACTTTAGCGGCGC-TA-AGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAA
45712331 TAAACGCCACTAAAGATCATGT
64 TAAACGCCACTAAAGATCATGT
* * * *
45712353 TCTTTAGTGGCGCTTAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAATA
1 ACTTTAGCGGCGCTAAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATA
45712417 AACGCCACTAAAGATCATGT
66 AACGCCACTAAAGATCATGT
*
45712437 ACTTTAGCGGCGCTAAGGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGCTT
1 ACTTTAGCGGCGCTAA-GAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTT
45712495 GTTCAAAAAC
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
84 39 0.30
85 78 0.61
86 1 0.01
87 10 0.08
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (85 bp):
ACTTTAGCGGCGCTAAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATA
AACGCCACTAAAGATCATGT
Found at i:45712513 original size:127 final size:127
Alignment explanation
Indices: 45712267--45712537 Score: 370
Period size: 127 Copynumber: 2.1 Consensus size: 127
45712257 ACGTCGCAAA
* * * * *
45712267 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCACTAAAGATCATGTACTTTAGCGGCGCTAAGGAAAA
**
45712332 AAACGCCACTAAAGATCATGTTCTTTAGTGGCGCTTAGAAATAAACGCCACT-AAAGATCA-TGT
64 AAACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTAGAAATAAACGCCACTAAAAG-T-AGTGT
45712395 T
127 T
*
45712396 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTACTTTAGCGGCGCTAAGGAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTACTTTAGCGGCGCTAAGGAAAAAA
* *
45712461 ACGCCACTAAAGATCATGTTCTTTAGCAGCGCTT-GTTCAA-AAACGCCGCTAAAAGTAGTGTT
66 ACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTAG--AAATAAACGCCACTAAAAGTAGTGTT
45712523 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
45712538 TTTCACAAAC
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
126 2 0.02
127 107 0.84
128 6 0.05
129 13 0.10
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (127 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTACTTTAGCGGCGCTAAGGAAAAAA
ACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTAGAAATAAACGCCACTAAAAGTAGTGTT
Found at i:45712553 original size:85 final size:83
Alignment explanation
Indices: 45712267--45712537 Score: 332
Period size: 85 Copynumber: 3.2 Consensus size: 83
45712257 ACGTCGCAAA
* * * *
45712267 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCT--TGAAAT
45712332 AAACGCCACTAAAGATCATGTT
62 AAACGCCACTAAAGATCATGTT
* *
45712354 CTTTAGTGGCGCTTAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTT-GAAATAAA
*
45712419 CGCCACTAAAGATCATGTA
65 CGCCACTAAAGATCATGTT
* * *
45712438 CTTTAGCGGCGCTAAGGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTGTTCAA-A
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTG--AAATA
*
45712502 AACGCCGCTAAA-AGT-AGTGTT
63 AACGCCACTAAAGA-TCA-TGTT
45712523 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
45712538 TTTCACAAAC
Statistics
Matches: 163, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
84 42 0.26
85 107 0.66
86 2 0.01
87 12 0.07
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (83 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTGAAATAAAC
GCCACTAAAGATCATGTT
Found at i:45712997 original size:21 final size:21
Alignment explanation
Indices: 45712973--45713038 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
45712963 TCTATCGCTA
* *
45712973 CTTCTCTCGCTGCGGCCTTTG
1 CTTCTCTCGCTGCAGCCTCTG
* *
45712994 CTTCTCTCGCTGTAGCGTCTG
1 CTTCTCTCGCTGCAGCCTCTG
*
45713015 CTTCTCTCGCTGCCGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTG
45713036 CTT
1 CTT
45713039 TAAGTTGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.02, C:0.39, G:0.21, T:0.38
Consensus pattern (21 bp):
CTTCTCTCGCTGCAGCCTCTG
Found at i:45718220 original size:16 final size:16
Alignment explanation
Indices: 45718199--45718230 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45718189 TGAAGAGGAA
45718199 GTACTACGCGGGCATT
1 GTACTACGCGGGCATT
45718215 GTACTACGCGGGCATT
1 GTACTACGCGGGCATT
45718231 CTCCATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (16 bp):
GTACTACGCGGGCATT
Found at i:45718537 original size:9 final size:9
Alignment explanation
Indices: 45718523--45718897 Score: 136
Period size: 9 Copynumber: 43.9 Consensus size: 9
45718513 AAGATATACA
45718523 TTATGTAAG
1 TTATGTAAG
45718532 TTATGTAAG
1 TTATGTAAG
45718541 TTATGTAAG
1 TTATGTAAG
45718550 TTATGTAAG
1 TTATGTAAG
*
45718559 TTGTGTAAG
1 TTATGTAAG
**
45718568 TTGCGTAAG
1 TTATGTAAG
* *
45718577 ATGTGT-A-
1 TTATGTAAG
* *
45718584 TTATGAAAC
1 TTATGTAAG
*
45718593 TTATGT--C
1 TTATGTAAG
45718600 TTATGTAAG
1 TTATGTAAG
*
45718609 TTATGTAAT
1 TTATGTAAG
45718618 TTATGT-A-
1 TTATGTAAG
*
45718625 TTATTTACA-
1 TTATGTA-AG
*
45718634 -CATGTAAG
1 TTATGTAAG
*
45718642 TTATGT--C
1 TTATGTAAG
45718649 TTATGTAAG
1 TTATGTAAG
**
45718658 TTGCGTAAG
1 TTATGTAAG
*
45718667 TTGTGT-A-
1 TTATGTAAG
* *
45718674 TTATGAAAC
1 TTATGTAAG
45718683 TTATGTAAG
1 TTATGTAAG
** *
45718692 TTGCGTAAA
1 TTATGTAAG
*
45718701 TTGTGT-A-
1 TTATGTAAG
*
45718708 TTATGTAAC
1 TTATGTAAG
* *
45718717 TTATTTAAT
1 TTATGTAAG
*
45718726 TTATGTAGG
1 TTATGTAAG
*
45718735 GTATGTATTA-
1 TTATGTA--AG
*
45718745 TTATGTAAC
1 TTATGTAAG
* *
45718754 TTATTTAAT
1 TTATGTAAG
*
45718763 TTATGTAGG
1 TTATGTAAG
*
45718772 GTATGTAAG
1 TTATGTAAG
45718781 TTATGTAAG
1 TTATGTAAG
*
45718790 TTCTGT-A-
1 TTATGTAAG
*
45718797 TTATTTACA-
1 TTATGTA-AG
*
45718806 -CATGTAAG
1 TTATGTAAG
*
45718814 TTGTGT-A-
1 TTATGTAAG
45718821 TTATGTATTA-
1 TTATGTA--AG
*
45718831 TTATGTAAC
1 TTATGTAAG
*
45718840 TTATTTAAG
1 TTATGTAAG
*
45718849 TTATGCAAG
1 TTATGTAAG
* *
45718858 GTATAT-A-
1 TTATGTAAG
* *
45718865 TTAAGTAGG
1 TTATGTAAG
45718874 TTATGTAAG
1 TTATGTAAG
45718883 TTATGT--G
1 TTATGTAAG
45718890 TTATGTAA
1 TTATGTAA
45718898 ATGAATATAT
Statistics
Matches: 272, Mismatches: 65, Indels: 58
0.69 0.16 0.15
Matches are distributed among these distances:
7 51 0.19
8 20 0.07
9 187 0.69
10 14 0.05
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:45718612 original size:16 final size:17
Alignment explanation
Indices: 45718532--45718659 Score: 77
Period size: 16 Copynumber: 7.6 Consensus size: 17
45718522 ATTATGTAAG
*
45718532 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-AC
* *
45718550 TTATGTAAGTTGTGTAAG
1 TTATGTAAGTTATGT-AC
** * *
45718568 TTGCGTAAGATGTGTA-
1 TTATGTAAGTTATGTAC
* *
45718584 TTATGAAACTTATGT-C
1 TTATGTAAGTTATGTAC
*
45718600 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATGT-AC
*
45718618 TTATGT-A-TTATTTAC
1 TTATGTAAGTTATGTAC
**
45718633 ACATGTAAGTTATGT-C
1 TTATGTAAGTTATGTAC
45718649 TTATGTAAGTT
1 TTATGTAAGTT
45718660 GCGTAAGTTG
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
15 5 0.06
16 38 0.45
17 7 0.08
18 35 0.41
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.46
Consensus pattern (17 bp):
TTATGTAAGTTATGTAC
Found at i:45718686 original size:34 final size:34
Alignment explanation
Indices: 45718648--45718720 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
45718638 TAAGTTATGT
*
45718648 CTTATGTAAGTTGCGTAAGTTGTGTATTATGAAA
1 CTTATGTAAGTTGCGTAAATTGTGTATTATGAAA
*
45718682 CTTATGTAAGTTGCGTAAATTGTGTATTATGTAA
1 CTTATGTAAGTTGCGTAAATTGTGTATTATGAAA
45718716 CTTAT
1 CTTAT
45718721 TTAATTTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (34 bp):
CTTATGTAAGTTGCGTAAATTGTGTATTATGAAA
Found at i:45718690 original size:25 final size:25
Alignment explanation
Indices: 45718635--45718694 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
45718625 TTATTTACAC
* * * *
45718635 ATGTAAGTTATGTCTTATGTAAGTT
1 ATGTAAGTTGTGTATTATGAAACTT
**
45718660 GCGTAAGTTGTGTATTATGAAACTT
1 ATGTAAGTTGTGTATTATGAAACTT
45718685 ATGTAAGTTG
1 ATGTAAGTTG
45718695 CGTAAATTGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.43
Consensus pattern (25 bp):
ATGTAAGTTGTGTATTATGAAACTT
Found at i:45718754 original size:37 final size:37
Alignment explanation
Indices: 45718706--45718778 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
45718696 GTAAATTGTG
45718706 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
45718743 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
45718779 AGTTATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:45720117 original size:14 final size:14
Alignment explanation
Indices: 45720098--45720127 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45720088 CACGAACAGC
45720098 AAGATGATTAACTA
1 AAGATGATTAACTA
45720112 AAGATGATTAACTA
1 AAGATGATTAACTA
45720126 AA
1 AA
45720128 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:45720392 original size:53 final size:54
Alignment explanation
Indices: 45720329--45720430 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
45720319 TCAGACTTAG
45720329 AAATTATTTCAAATCCAAAGC-A-TATTTCAGAACATAACAACATAATCAAAAAC
1 AAATTATTTCAAATCC-AAGCAATTATTTCAGAACATAACAACATAATCAAAAAC
**
45720382 AAATTATTTCAAATCCACTCAATTATTTCAGAACATAACAACATAATCA
1 AAATTATTTCAAATCCAAGCAATTATTTCAGAACATAACAACATAATCA
45720431 TGTGCTATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 2 0.04
53 17 0.38
54 26 0.58
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (54 bp):
AAATTATTTCAAATCCAAGCAATTATTTCAGAACATAACAACATAATCAAAAAC
Found at i:45720636 original size:22 final size:22
Alignment explanation
Indices: 45720608--45720654 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
45720598 GTGGCTGTAA
**
45720608 TAACAGAAACGCCTTACTTATT
1 TAACAGAAACGCCTTAAATATT
45720630 TAACAGAAACGCCTTAAATATT
1 TAACAGAAACGCCTTAAATATT
45720652 TAA
1 TAA
45720655 TCGGAATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (22 bp):
TAACAGAAACGCCTTAAATATT
Found at i:45721649 original size:7 final size:7
Alignment explanation
Indices: 45721637--45721674 Score: 67
Period size: 7 Copynumber: 5.3 Consensus size: 7
45721627 TTTGGGATTT
45721637 AACCCTA
1 AACCCTA
45721644 AACCCTA
1 AACCCTA
45721651 AACCCTA
1 AACCCTA
45721658 AACCTCTA
1 AACC-CTA
45721666 AACCCTA
1 AACCCTA
45721673 AA
1 AA
45721675 ATCCTAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:45721656 original size:14 final size:15
Alignment explanation
Indices: 45721637--45721674 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
45721627 TTTGGGATTT
45721637 AACCCTAAACC-CTA
1 AACCCTAAACCTCTA
45721651 AACCCTAAACCTCTA
1 AACCCTAAACCTCTA
45721666 AACCCTAAA
1 AACCCTAAA
45721675 ATCCTAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
AACCCTAAACCTCTA
Found at i:45721817 original size:22 final size:21
Alignment explanation
Indices: 45721773--45721829 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
45721763 ACTAAAGTAG
*
45721773 CTTAAACCCCAAACCTTAAAC
1 CTTAAACCCCAAACCCTAAAC
*
45721794 CTTAAACCCCAGACTCCTAAAC
1 CTTAAACCCCAAAC-CCTAAAC
*
45721816 CTTAAACCCAAAAC
1 CTTAAACCCCAAAC
45721830 ACCCTAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.42, C:0.39, G:0.02, T:0.18
Consensus pattern (21 bp):
CTTAAACCCCAAACCCTAAAC
Found at i:45721846 original size:23 final size:23
Alignment explanation
Indices: 45721820--45721875 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
45721810 CTAAACCTTA
*
45721820 AACCCAAAACACCCTAATACCCT
1 AACCCTAAACACCCTAATACCCT
*
45721843 AACCCTAAACACTCTAATACCCT
1 AACCCTAAACACCCTAATACCCT
45721866 AACCCTAAAC
1 AACCCTAAAC
45721876 CTACATCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (23 bp):
AACCCTAAACACCCTAATACCCT
Found at i:45721894 original size:7 final size:7
Alignment explanation
Indices: 45721775--45721895 Score: 68
Period size: 7 Copynumber: 16.7 Consensus size: 7
45721765 TAAAGTAGCT
45721775 TAAACCC
1 TAAACCC
* *
45721782 CAAACCT
1 TAAACCC
*
45721789 TAAACCT
1 TAAACCC
45721796 TAAACCC
1 TAAACCC
* *
45721803 CAGACTCC
1 TAAAC-CC
*
45721811 TAAACCT
1 TAAACCC
45721818 TAAACCC
1 TAAACCC
*
45721825 AAAACACCC
1 -TAA-ACCC
45721834 TAATACCC
1 TAA-ACCC
45721842 T-AACCC
1 TAAACCC
45721848 TAAACACTC
1 TAAAC-C-C
45721857 TAATACCC
1 TAA-ACCC
45721865 T-AACCC
1 TAAACCC
45721871 TAAA-CC
1 TAAACCC
* * *
45721877 TACATCA
1 TAAACCC
45721884 TAAACCC
1 TAAACCC
45721891 TAAAC
1 TAAAC
45721896 TTTAAACTTT
Statistics
Matches: 87, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
6 15 0.17
7 44 0.51
8 17 0.20
9 9 0.10
10 2 0.02
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:45722247 original size:115 final size:114
Alignment explanation
Indices: 45722109--45722772 Score: 420
Period size: 113 Copynumber: 5.9 Consensus size: 114
45722099 AACAAATCGT
* * *
45722109 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAATCGCCACTAAATCAAGTATACATCAAGACC
1 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * * * *
45722174 AAAACGATGCGTTTTGGTTCAGATATTTGGTGGCACTTTTATCCAAGCGC
66 AAAACGATGCATTTTGGTTAAGATATTTTGCGGCGCTTTTAT-CAAGAGC
* * * * * *
45722224 CGCTAATACTATGCTTTAACGGCG-TTT-CCCTAAGCGTCACTAATTCTACTATACATCGAGGCC
1 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
** * *
45722287 AAAATTATGCATTTTGGTTAAGATATTTTGCGGCGC-TTTGT---GAGA
66 AAAACGATGCATTTTGGTTAAGATATTTTGCGGCGCTTTTATCAAGAGC
** * * * * * * * *
45722332 AACTATTAATATTCTTTAGCGGTGGTTTACCGTAAGCGCCACTAATTTTA-TATACATTAAGATC
1 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * *** **
45722396 AAAACGCTGCATTTTGGTTAATATATTTTGCGGCGCTAGCCA-CGAATTGC
66 AAAACGATGCATTTTGGTTAAGATATTTTGCGGCGCT-TTTATC-AAGAGC
* * * *
45722446 CGCTAATACTATTCTTTAGCGGCGTTTGACCGTATGCGCCACTAGTTCTAGTATACATCAAGACC
1 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
** * * * * *** * * *
45722511 AAAACGATGTGTTTCGGTTCAGATAGTTTGTGGCGCTTCCGTAAAGCGG
66 AAAACGATGCATTTTGGTTAAGATATTTTGCGGCGCTTTTATCAAGAGC
* * * ** * * * * *
45722560 CGCTATTACTGTCCTTTAATGGCGTTTTCCCATAAACGCCAGTAATTCTAAG-ATACCTCAAGAC
1 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAAGCGCCACTAATTCT-AGTATACATCAAGAC
** * * ** *
45722624 C-AAACTCTGCATTTTGATTAAGCTATTTTGCGGCG-TTTCTAAAAAGCGC
65 CAAAACGATGCATTTTGGTTAAGATATTTTGCGGCGCTTT-TATCAAGAGC
* * * * * * * * *
45722673 CGCTATTACTGTCCTTTAACGGTG-TTT-CGCGTAAACGCCACTACTTTTAGGATACATCAAGAC
1 CGCTAATACTATGCTTTAGCGGCGTTTTAC-CGTAAGCGCCACTAATTCTAGTATACATCAAGAC
* * * * *
45722736 GAAAACACAT-CGTTTTGGTTAAGAGATTTCGCGGCGC
65 CAAAAC-GATGCATTTTGGTTAAGATATTTTGCGGCGC
45722773 ATTGTGGTAA
Statistics
Matches: 419, Mismatches: 113, Indels: 35
0.74 0.20 0.06
Matches are distributed among these distances:
108 19 0.05
109 45 0.11
110 18 0.04
111 3 0.01
112 35 0.08
113 134 0.32
114 99 0.24
115 66 0.16
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (114 bp):
CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
AAAACGATGCATTTTGGTTAAGATATTTTGCGGCGCTTTTATCAAGAGC
Found at i:45725102 original size:21 final size:21
Alignment explanation
Indices: 45725052--45725102 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
45725042 GTCTTTTAGG
*
45725052 ATTTCTTTTTCCGTGTTTTGA
1 ATTTCTTTTTCCGTGTTGTGA
* * *
45725073 TTTTTTTTTATTC-TGTTGTGA
1 ATTTCTTTT-TCCGTGTTGTGA
45725094 ATTTCTTTT
1 ATTTCTTTT
45725103 GGGAGGGGCC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.10, C:0.10, G:0.12, T:0.69
Consensus pattern (21 bp):
ATTTCTTTTTCCGTGTTGTGA
Found at i:45729673 original size:12 final size:12
Alignment explanation
Indices: 45729652--45729691 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
45729642 AGAATCAGCG
*
45729652 GCAGCAGCGGCA
1 GCAGCGGCGGCA
45729664 GCAGCGGCGGCA
1 GCAGCGGCGGCA
* *
45729676 GCGGCGGCGGAA
1 GCAGCGGCGGCA
45729688 GCAG
1 GCAG
45729692 TAGATTGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.50, T:0.00
Consensus pattern (12 bp):
GCAGCGGCGGCA
Found at i:45729683 original size:9 final size:9
Alignment explanation
Indices: 45729647--45729680 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
45729637 AAACAAGAAT
45729647 CAGCGGCAG
1 CAGCGGCAG
45729656 CAGCGGCAG
1 CAGCGGCAG
*
45729665 CAGCGGCGG
1 CAGCGGCAG
45729674 CAGCGGC
1 CAGCGGC
45729681 GGCGGAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.18, C:0.35, G:0.47, T:0.00
Consensus pattern (9 bp):
CAGCGGCAG
Found at i:45743057 original size:23 final size:25
Alignment explanation
Indices: 45743013--45743058 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
45743003 TTAGGTTAAG
45743013 TATATATTATTTTGTATATTATATC
1 TATATATTATTTTGTATATTATATC
*
45743038 TATATA-TATTTTG-ATCTTATA
1 TATATATTATTTTGTATATTATA
45743059 CTTGTGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATATTATTTTGTATATTATATC
Found at i:45745301 original size:27 final size:27
Alignment explanation
Indices: 45745253--45745733 Score: 255
Period size: 27 Copynumber: 17.8 Consensus size: 27
45745243 ATCTGGATCG
** *
45745253 AAATACCCCCAAAAGGTAAAATGACCA
1 AAATACCCCTGAAGGGTAAAATGACCA
* * * *
45745280 AAATACCCTTGAAGGGTGAAATGATCG
1 AAATACCCCTGAAGGGTAAAATGACCA
* * * * * *
45745307 AAATACCCTTAAAGAGAAAAATTACCG
1 AAATACCCCTGAAGGGTAAAATGACCA
* *
45745334 AAATA-CCCTCGAAAGGTAAAATTACCGA
1 AAATACCCCT-GAAGGGTAAAATGACC-A
* * * * *
45745362 AAA-ACCCCCGAAGGATAAAATTATCT
1 AAATACCCCTGAAGGGTAAAATGACCA
** * **
45745388 AAATACCCCCAAAAGGTAAAATGATTA
1 AAATACCCCTGAAGGGTAAAATGACCA
* * * *
45745415 AATTACCCCCGAAGGGTAAAATGATCG
1 AAATACCCCTGAAGGGTAAAATGACCA
* * * * *
45745442 AATTACCCCCGAAGGTTAAAATGATCG
1 AAATACCCCTGAAGGGTAAAATGACCA
* *
45745469 AATTACCCTTGAAGGGTAAAATGACCA
1 AAATACCCCTGAAGGGTAAAATGACCA
* *
45745496 AATTACCCCTGAAGAGTAAAATGACCA
1 AAATACCCCTGAAGGGTAAAATGACCA
* * *
45745523 AAATA-CCCTCATAGGGTAGAATGACCG
1 AAATACCCCTGA-AGGGTAAAATGACCA
**
45745550 AAATACCCCCAT-AA-GGTAAAATGACTG
1 AAATA-CCCC-TGAAGGGTAAAATGACCA
* *
45745577 AAATACCCCT-ATAGGGTAGAATGATCA
1 AAATACCCCTGA-AGGGTAAAATGACCA
* *
45745604 AAATA-CCCTTATAGGGTAAAATGACCG
1 AAATACCCCTGA-AGGGTAAAATGACCA
* * *
45745631 AAATA-CCCTTATACGGTAAAATGACTA
1 AAATACCCCTGA-AGGGTAAAATGACCA
* * * **
45745658 AAATACCCC-CATAGAGTAAAATAACTG
1 AAATACCCCTGA-AGGGTAAAATGACCA
* * * *
45745685 TAATACCCCT-ATAGGGTTAAATAACTA
1 AAATACCCCTGA-AGGGTAAAATGACCA
45745712 AAATACCCCTGTAA-GGTAAAAT
1 AAATACCCCTG-AAGGGTAAAAT
45745734 AACTATAACG
Statistics
Matches: 368, Mismatches: 71, Indels: 30
0.78 0.15 0.06
Matches are distributed among these distances:
25 2 0.01
26 20 0.05
27 329 0.89
28 11 0.03
29 5 0.01
30 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATACCCCTGAAGGGTAAAATGACCA
Found at i:45745409 original size:81 final size:81
Alignment explanation
Indices: 45745251--45745667 Score: 310
Period size: 81 Copynumber: 5.1 Consensus size: 81
45745241 ATATCTGGAT
* ** *
45745251 CGAAATACCCCCAAAAGGTAAAATGACCAAAATACCCTTGAAGGGTGAAATGATCGAAATA-CCC
1 CGAAATACCCCCGAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGATCGAAATACCCC
** * *
45745315 TTAAAGAGAAAAATTAC
66 CAAAAG-GTAAAATGAC
* * * * *
45745332 CGAAATACCCTCGAAAGGTAAAATTACCGAAAA-ACCCCCGAAGGATAAAATTATCTAAATACCC
1 CGAAATACCCCCGAAAGGTAAAATGACC-AAAATACCCCCGAAGGGTAAAATGATCGAAATACCC
45745396 CCAAAAGGTAAAATGA-
65 CCAAAAGGTAAAATGAC
** * * * * * *
45745412 TTAAATTACCCCCGAAGGGTAAAATGATCGAATTACCCCCGAAGGTTAAAATGATCGAATTACCC
1 CGAAA-TACCCCCGAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGATCGAAATACCC
*** *
45745477 TTGAAGGGTAAAATGAC
65 CCAAAAGGTAAAATGAC
* * * *
45745494 C-AAATTACCCCTG-AAGAGTAAAATGACCAAAATACCCTC-ATAGGGTAGAATGACCGAAATAC
1 CGAAA-TACCCCCGAAAG-GTAAAATGACCAAAATACCCCCGA-AGGGTAAAATGATCGAAATAC
*
45745556 CCCCATAAGGTAAAATGAC
63 CCCCAAAAGGTAAAATGAC
* * * * * ** *
45745575 TGAAATA-CCCCTATAGGGTAGAATGATCAAAATA-CCCTTATAGGGTAAAATGACCGAAATACC
1 CGAAATACCCCCGA-AAGGTAAAATGACCAAAATACCCCCGA-AGGGTAAAATGATCGAAATACC
** * *
45745638 CTTATACGGTAAAATGAC
64 CCCAAAAGGTAAAATGAC
**
45745656 TAAAATACCCCC
1 CGAAATACCCCC
45745668 ATAGAGTAAA
Statistics
Matches: 266, Mismatches: 58, Indels: 23
0.77 0.17 0.07
Matches are distributed among these distances:
80 13 0.05
81 233 0.88
82 20 0.08
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.19
Consensus pattern (81 bp):
CGAAATACCCCCGAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGATCGAAATACCCC
CAAAAGGTAAAATGAC
Found at i:45745654 original size:54 final size:54
Alignment explanation
Indices: 45745267--45745720 Score: 285
Period size: 54 Copynumber: 8.4 Consensus size: 54
45745257 ACCCCCAAAA
** * * *
45745267 GGTAAAATGACCAAAATACCCTTGA-AGGGTGAAATGATCGAAATACCCTTAAAG
1 GGTAAAATGACCAAAATACCC-CCATAGGGTAAAATGACCGAAATACCCTTATAG
* * * * * * * * **
45745321 AGAAAAATTACCGAAATACCCTCGA-AAGGTAAAATTACCGAAAAACCCCCGA-AG
1 GGTAAAATGACCAAAATACCC-CCATAGGGTAAAATGACCGAAATA-CCCTTATAG
* * * * * * ** **
45745375 GATAAAATTATCTAAATACCCCCAAAAGGTAAAATGA-TTAAATTACCCCCGA-AG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAA-TA-CCCTTATAG
* * * * * *
45745429 GGTAAAATGATCGAATTACCCCCGA-AGGTTAAAATGATCGAATTACCCTTGA-AG
1 GGTAAAATGACCAAAATACCCCC-ATAGGGTAAAATGACCGAAATACCCTT-ATAG
* * * * *
45745483 GGTAAAATGACCAAATTACCCCTGA-AGAGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCC-CATAGGGTAAAATGACCGAAATACCCTTATAG
* * * * *
45745537 GGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTTATAG
* * ** *
45745591 GGTAGAATGATCAAAATACCCTTATAGGGTAAAATGACCGAAATACCCTTATAC
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTTATAG
* * * * * *
45745645 GGTAAAATGACTAAAATACCCCCATAGAGTAAAATAACTGTAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTTATAG
* * *
45745699 GGTTAAATAACTAAAATACCCC
1 GGTAAAATGACCAAAATACCCC
45745721 TGTAAGGTAA
Statistics
Matches: 318, Mismatches: 73, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
53 10 0.03
54 301 0.95
55 7 0.02
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (54 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTTATAG
Found at i:45745811 original size:24 final size:24
Alignment explanation
Indices: 45745779--45745841 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
45745769 GCCCCTCAAG
*
45745779 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCCGTGA
*
45745803 TGTAAATGACTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCCGTGA
* **
45745827 TTTGTATGACTGATT
1 TGTAAATGACTGATT
45745842 CTAAGCATGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCCGTGA
Found at i:45745943 original size:27 final size:27
Alignment explanation
Indices: 45745905--45745968 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
45745895 ATGGAGGAAG
45745905 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
45745930 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
*
45745958 TACTATTACTG
1 TACTGTTACTG
45745969 CCAGCTTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 26 0.76
28 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:45746066 original size:32 final size:32
Alignment explanation
Indices: 45746011--45746105 Score: 118
Period size: 32 Copynumber: 3.0 Consensus size: 32
45746001 TTGCTGCGAT
* * * *
45746011 GCTACTGATAGATTTGTGTCGATCATATTACC
1 GCTACTGATGGCTGTGTGCCGATCATATTACC
* * *
45746043 GTTACTGATGGCTGTGTGCCGATCATATCACT
1 GCTACTGATGGCTGTGTGCCGATCATATTACC
*
45746075 GCTACTGATGGCTGTGTGCCAATCATATTAC
1 GCTACTGATGGCTGTGTGCCGATCATATTAC
45746106 TGTACTTATG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (32 bp):
GCTACTGATGGCTGTGTGCCGATCATATTACC
Found at i:45749613 original size:23 final size:23
Alignment explanation
Indices: 45749586--45749661 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
45749576 AGTGTTATTG
45749586 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* * *
45749609 TTCAGTTGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* *
45749632 ATCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
45749655 ATCAGTG
1 ATCAGTG
45749662 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:45752405 original size:40 final size:40
Alignment explanation
Indices: 45752361--45752584 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
45752351 GCTCCTCGTT
* *
45752361 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
45752401 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
45752441 CAAATCCCTTTGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
45752480 CAAATGCCTTC-AGATCTTAGTCCGGATAT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
45752519 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
45752560 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45752585 CATCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 68 0.43
40 78 0.49
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:45752461 original size:79 final size:78
Alignment explanation
Indices: 45752361--45752584 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 78
45752351 GCTCCTCGTT
* * *
45752361 CAAATGCCTTCGG-GACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATCCCTTCGGAG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
45752425 GATTTAGTAACTCGCA
64 GATAT-GTAACTCGCA
* * * * *
45752441 CAAATCCCTTTGG-GCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCG
1 CAAATCCCTTCGGAGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
*
45752504 GATATGTATCTCGCA
64 GATATGTAACTCGCA
* * * * * *
45752519 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATCCCTTCGGAGCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
45752583 GA
64 GA
45752585 CATCATTCAA
Statistics
Matches: 117, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
78 23 0.20
79 71 0.61
80 23 0.20
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATCCCTTCGGAGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TATGTAACTCGCA
Found at i:45755228 original size:42 final size:42
Alignment explanation
Indices: 45755169--45755282 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
45755159 TTGATTTATT
* * *
45755169 AACTGAGATTTTATTTGCATGTTAAGCTTGTTGACTATGATA
1 AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGATA
* *
45755211 AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGTTG
1 AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGATA
* * **
45755253 AACTTAGATTTGATTCACATGTTAAGCATG
1 AACTGAGATTTAATTTGCATGTTAAGCATG
45755283 CCTACTGACA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (42 bp):
AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGATA
Found at i:45755403 original size:24 final size:24
Alignment explanation
Indices: 45755373--45755491 Score: 130
Period size: 24 Copynumber: 5.0 Consensus size: 24
45755363 GTTATTGCAA
***
45755373 TATTGAGTGGCTTGACCACAATAT
1 TATTGAGTGGCTTGACCACAACGC
*
45755397 TATTGAGTGGCTTGGCCACAACGC
1 TATTGAGTGGCTTGACCACAACGC
* * *
45755421 TATTAAGTGTCTTGCCCACAACGC
1 TATTGAGTGGCTTGACCACAACGC
* * * * *
45755445 TATTAAGTGTCTTGCCCACAATGT
1 TATTGAGTGGCTTGACCACAACGC
45755469 TATTGAGTGGCTTGACCACAACG
1 TATTGAGTGGCTTGACCACAACG
45755492 ATGCAGCTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGC
Found at i:45776144 original size:41 final size:41
Alignment explanation
Indices: 45776087--45776195 Score: 155
Period size: 41 Copynumber: 2.7 Consensus size: 41
45776077 GATACCACTT
* **
45776087 CGGCATAAAGCCTGCTAGGCTTAAAGCCTGATATGGTACAC
1 CGGCATAAAGCCTGCTAGGCTTAAAGCCTGAAATAATACAC
* * *
45776128 CGGCATTAAGCCTGCTAGGCGTAAAGCCTGAAATAATTCAC
1 CGGCATAAAGCCTGCTAGGCTTAAAGCCTGAAATAATACAC
*
45776169 CGGCATAAAGCCTGCTAGGCTGAAAGC
1 CGGCATAAAGCCTGCTAGGCTTAAAGC
45776196 TCGATTATCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (41 bp):
CGGCATAAAGCCTGCTAGGCTTAAAGCCTGAAATAATACAC
Found at i:45782518 original size:16 final size:16
Alignment explanation
Indices: 45782497--45782527 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45782487 TGCTTAGGGG
45782497 TTAATTTTGTAATTTT
1 TTAATTTTGTAATTTT
*
45782513 TTAATTTTGTGATTT
1 TTAATTTTGTAATTT
45782528 GTTTTTTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (16 bp):
TTAATTTTGTAATTTT
Found at i:45783803 original size:101 final size:102
Alignment explanation
Indices: 45783681--45783864 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
45783671 AAAGTGATGG
* *
45783681 TCACGTGTGTAGTACTATGTGCAGG-CTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAG
1 TCACGTATGTAGTACTATGTGCAGGAC-ACTACGTGTACC-GAATGATAATGGTCACATGTGTAG
*
45783743 TACTATGTGCAGGGTACTATTCGTACCAGATAGTTTCGA
64 TACTATGTGCAGGCTACTATTCGTACCAGATAGTTTCGA
* *
45783782 TCACGTATGTAGTACTATGTGCAGGACACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGCAGGACACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
45783847 CTATGTGCAGGCTACTAT
66 CTATGTGCAGGCTACTAT
45783865 GTGAACCAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 6 0.08
101 36 0.48
102 33 0.44
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGACACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATTCGTACCAGATAGTTTCGA
Found at i:45783844 original size:51 final size:48
Alignment explanation
Indices: 45783677--45783863 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 48
45783667 AGTGAAAGTG
* *
45783677 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGC-ACTACGTGTA-C-GAATGGT
* * * * *
45783728 A-GGTCGCATGTGTAGTACTATGTGCAGGGTACTA-TTCGTACCAGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCA-GGCACTACGT-GTACGA-ATGGT
* * * *
45783777 TTCGATCACGTATGTAGTACTATGTGCAGGACACTACGTGTATCGAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGG-CACTACGTGTA-CGAATGGT
45783828 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGC-ACTA
45783864 TGTGAACCAA
Statistics
Matches: 106, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
48 1 0.01
49 5 0.05
50 33 0.31
51 63 0.59
52 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (48 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCACTACGTGTACGAATGGT
Found at i:45802164 original size:3 final size:3
Alignment explanation
Indices: 45802156--45802186 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
45802146 ATAAAGAAGG
45802156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45802187 GGATTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45802231 original size:5 final size:6
Alignment explanation
Indices: 45802212--45802263 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
45802202 TTTGGAATTC
* * *
45802212 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAA AAAGGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAA-TAA AAATAA
45802263 A
1 A
45802264 GATATACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 27 0.71
7 7 0.18
8 4 0.11
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:45803971 original size:27 final size:28
Alignment explanation
Indices: 45803908--45803971 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
45803898 AACACTCCGG
* * *
45803908 AGAAATGGAAGTCTTTGTGGCAATTTAT
1 AGAAATGGAAGCCTTTATGGCAATCTAT
*
45803936 -GAAATGGAAGCCTTTATGGCGATCTAT
1 AGAAATGGAAGCCTTTATGGCAATCTAT
45803963 AGAAA-GGAA
1 AGAAATGGAA
45803972 TGTCTTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.28
Consensus pattern (28 bp):
AGAAATGGAAGCCTTTATGGCAATCTAT
Found at i:45804146 original size:5 final size:5
Alignment explanation
Indices: 45804138--45804164 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45804128 TTTTATTTAA
45804138 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
45804165 GACTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:45804219 original size:10 final size:10
Alignment explanation
Indices: 45804184--45804230 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
45804174 TATAAAAATA
45804184 TTTTTATTATAT
1 TTTTTA-TA-AT
*
45804196 TTTTTGTAA-
1 TTTTTATAAT
*
45804205 GTTTTATAAT
1 TTTTTATAAT
45804215 TTTTTATAAT
1 TTTTTATAAT
45804225 TTTTTA
1 TTTTTA
45804231 CATGATATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 2 0.07
12 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:45804227 original size:18 final size:18
Alignment explanation
Indices: 45804190--45804227 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
45804180 AATATTTTTA
*
45804190 TTATATTTTTTGTAAGTT
1 TTATATTTTTTATAAGTT
45804208 TTATAATTTTTTATAA-TT
1 TTAT-ATTTTTTATAAGTT
45804226 TT
1 TT
45804228 TTACATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTATATTTTTTATAAGTT
Found at i:45804825 original size:11 final size:11
Alignment explanation
Indices: 45804809--45804848 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
45804799 TGTAATCTTC
45804809 TCTTTTTTTTT
1 TCTTTTTTTTT
45804820 TCTTTTTTTTT
1 TCTTTTTTTTT
45804831 TCTGTTTTTTTT
1 TCT-TTTTTTTT
45804843 T-TTTTT
1 TCTTTTT
45804849 GCATTTTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 4 0.14
11 15 0.54
12 9 0.32
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:45804827 original size:13 final size:13
Alignment explanation
Indices: 45804806--45804846 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
45804796 CCTTGTAATC
*
45804806 TTCTCTTTTTTTT
1 TTCTTTTTTTTTT
45804819 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
* *
45804832 CTGTTTTTTTTTT
1 TTCTTTTTTTTTT
45804845 TT
1 TT
45804847 TTGCATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:45804855 original size:7 final size:7
Alignment explanation
Indices: 45804845--45804877 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
45804835 TTTTTTTTTT
45804845 TTTTGCA
1 TTTTGCA
45804852 TTTTGCA
1 TTTTGCA
45804859 TTTTGCA
1 TTTTGCA
45804866 TTTTGCA
1 TTTTGCA
45804873 TTTTG
1 TTTTG
45804878 GGATATGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (7 bp):
TTTTGCA
Found at i:45804855 original size:24 final size:24
Alignment explanation
Indices: 45804806--45804855 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
45804796 CCTTGTAATC
**
45804806 TTCTCTTTTTTTTTTCTTTTTTTT
1 TTCTCTTTTTTTTTTCTTTTCATT
*
45804830 TTCTGTTTTTTTTTT-TTTTGCATT
1 TTCTCTTTTTTTTTTCTTTT-CATT
45804854 TT
1 TT
45804856 GCATTTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (24 bp):
TTCTCTTTTTTTTTTCTTTTCATT
Found at i:45805831 original size:29 final size:29
Alignment explanation
Indices: 45805798--45805872 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
45805788 AAAAACATGT
*
45805798 TGACGTGGACGCACTTT-AGTAAAAAGCGC
1 TGACGAGGACGC-CTTTCAGTAAAAAGCGC
* *
45805827 TGACGAGGGCGCGTTTCAGTAAAAAGCGC
1 TGACGAGGACGCCTTTCAGTAAAAAGCGC
45805856 TGACGAGGACGCGCTTT
1 TGACGAGGACGC-CTTT
45805873 TCCCCGTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.08
29 33 0.85
30 3 0.08
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (29 bp):
TGACGAGGACGCCTTTCAGTAAAAAGCGC
Found at i:45806350 original size:84 final size:85
Alignment explanation
Indices: 45806201--45806361 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 85
45806191 TTGATTCTAA
* *
45806201 AAAAAATAATTTTGAAACGATGGTTCTGAAAACATATCTCGGGATCCTCAAGAAATCTGATAGTT
1 AAAAAATAATTTTGAAACGATGGTTCTGAAAACAAATCTCGGGATCCACAAGAAATCTGATAGTT
45806266 GGGGTTAAAAAATAATTCTG
66 GGGGTTAAAAAATAATTCTG
* * * *
45806286 AAAAAATAATTTTTAGAA-GATGGTTTTGAAAA-AAATC-CTGGGATTCACGAGAAATCTGATAG
1 AAAAAATAATTTTGA-AACGATGGTTCTGAAAACAAATCTC-GGGATCCACAAGAAATCTGATAG
*
45806348 TTGGGGTTGAAAAA
64 TTGGGGTTAAAAAA
45806362 CGCTTCAAGT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 1 0.01
84 37 0.55
85 27 0.40
86 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.29
Consensus pattern (85 bp):
AAAAAATAATTTTGAAACGATGGTTCTGAAAACAAATCTCGGGATCCACAAGAAATCTGATAGTT
GGGGTTAAAAAATAATTCTG
Found at i:45809630 original size:59 final size:58
Alignment explanation
Indices: 45809560--45809726 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 58
45809550 TAACTCCTAA
* *
45809560 TTTATTAAATGAAACAATGAAAAAATAATTTGTACAAACATATTTAAAAGAAATTCTAT
1 TTTATTAAATGAAACAAT-AAAAAATAATTTGTACAAAAATATTCAAAAGAAATTCTAT
* * * *
45809619 TTTATTAAATGAAACAATTTAAAAATAATTTATACAAAAATATTCAAAAGAACTTCTGT
1 TTTATTAAATGAAACAA-TAAAAAATAATTTGTACAAAAATATTCAAAAGAAATTCTAT
* * * *
45809678 TTCATTAAATGAAACAATATAAAAACAGTTTGTACAAATATATTCAAAA
1 TTTATTAAATGAAACAATA-AAAAATAATTTGTACAAAAATATTCAAAA
45809727 ATAAATCAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 92 0.98
60 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (58 bp):
TTTATTAAATGAAACAATAAAAAATAATTTGTACAAAAATATTCAAAAGAAATTCTAT
Found at i:45810132 original size:18 final size:18
Alignment explanation
Indices: 45810089--45810124 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45810079 GAGTGGAAAA
*
45810089 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGTT
45810107 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
45810125 CAGATACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAGGGTT
Found at i:45816836 original size:8 final size:8
Alignment explanation
Indices: 45816820--45816848 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
45816810 AGCTTCCATT
45816820 TTTTC-TC
1 TTTTCTTC
45816827 TTTTCTTC
1 TTTTCTTC
45816835 TTTTCTTC
1 TTTTCTTC
45816843 TTTTCT
1 TTTTCT
45816849 ACTCATTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTCTTC
Found at i:45823535 original size:85 final size:85
Alignment explanation
Indices: 45823383--45823542 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 85
45823373 GGCTGCCCCT
* * * * *
45823383 TTAAAATAAAAAATTTATTATTTAGATCTTTTAAAAATTTTTAAAATTTTAAATTAATAAAAATA
1 TTAAAATAAAAAATTTATAATTTAGATCTTTTAAAAATTATAAAAATATAAAATTAATAAAAATA
45823448 AAATTACATTTTGACATTTC
66 AAATTACATTTTGACATTTC
45823468 TTAAAATTATAAAAATTT-TAATTTA-ATAC-TTTAAAAATTATAAAAATATAAAATATAA-AAA
1 TTAAAA-TA-AAAAATTTATAATTTAGAT-CTTTTAAAAATTATAAAAATATAAAAT-TAATAAA
* *
45823529 ATTAAAATTTCATT
62 AATAAAATTACATT
45823543 CCGCTCCTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
85 44 0.69
86 12 0.19
87 8 0.12
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (85 bp):
TTAAAATAAAAAATTTATAATTTAGATCTTTTAAAAATTATAAAAATATAAAATTAATAAAAATA
AAATTACATTTTGACATTTC
Found at i:45827972 original size:16 final size:17
Alignment explanation
Indices: 45827953--45827985 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45827943 TTTTTTAATA
45827953 AAAATA-TTATAATTTT
1 AAAATATTTATAATTTT
45827969 AAAATATTTATAATTTT
1 AAAATATTTATAATTTT
45827986 TTAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAATATTTATAATTTT
Found at i:45828014 original size:20 final size:20
Alignment explanation
Indices: 45827942--45828023 Score: 77
Period size: 19 Copynumber: 4.2 Consensus size: 20
45827932 TGGTATTGTT
*
45827942 ATTTTTTAATAAAAATATTATA
1 ATTTTTTAAT--AAATTTTATA
45827964 A--TTTT-A-AAATATTTATA
1 ATTTTTTAATAAAT-TTTATA
*
45827981 ATTTTTTAAT-AATTTTATG
1 ATTTTTTAATAAATTTTATA
45828000 ATTTTTTAATAAATTTTA-A
1 ATTTTTTAATAAATTTTATA
45828019 ATTTT
1 ATTTT
45828024 AAAAGGGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
19 25 0.49
20 15 0.29
22 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
ATTTTTTAATAAATTTTATA
Found at i:45831163 original size:14 final size:14
Alignment explanation
Indices: 45831143--45831174 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
45831133 TTATGAGTTA
45831143 AAAAAAAAGATAAAG
1 AAAAAAAAGA-AAAG
45831158 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
45831172 AAA
1 AAA
45831175 GTGAGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:45832505 original size:13 final size:13
Alignment explanation
Indices: 45832487--45832511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45832477 TGTATTTTGA
45832487 ACAAAATATTTAC
1 ACAAAATATTTAC
45832500 ACAAAATATTTA
1 ACAAAATATTTA
45832512 AATTTAATTC
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
ACAAAATATTTAC
Found at i:45833086 original size:119 final size:119
Alignment explanation
Indices: 45832866--45833113 Score: 478
Period size: 119 Copynumber: 2.1 Consensus size: 119
45832856 TGGACAGCTA
*
45832866 AATTTCTACTGGAGCTTTCAGCAGCAATTGGAACCCTTGGGTGCTATTGGTATTTTTAAGAGACA
1 AATTTCT-TTGGAGCTTTCAGCAGCAATTGGAACCCTTGGGTGCTATTGGTATTTTTAAGAGACA
45832931 AAAATATCATTACTTTTATTTATTATTTTACCATTTTATCCTTGAAAGTTAAACT
65 AAAATATCATTACTTTTATTTATTATTTTACCATTTTATCCTTGAAAGTTAAACT
45832986 AATTTCTTTGGAGCTTTCAGCAGCAATTGGAACCCTTGGGTGCTATTGGTATTTTTAAGAGACAA
1 AATTTCTTTGGAGCTTTCAGCAGCAATTGGAACCCTTGGGTGCTATTGGTATTTTTAAGAGACAA
45833051 AAATATCATTACTTTTATTTATTATTTTACCATTTTATCCTTGAAAGTTAAACT
66 AAATATCATTACTTTTATTTATTATTTTACCATTTTATCCTTGAAAGTTAAACT
45833105 AATTTCTTT
1 AATTTCTTT
45833114 CCCAAATTTG
Statistics
Matches: 127, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 120 0.94
120 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (119 bp):
AATTTCTTTGGAGCTTTCAGCAGCAATTGGAACCCTTGGGTGCTATTGGTATTTTTAAGAGACAA
AAATATCATTACTTTTATTTATTATTTTACCATTTTATCCTTGAAAGTTAAACT
Found at i:45833479 original size:21 final size:21
Alignment explanation
Indices: 45833455--45833507 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
45833445 CATTATTTCT
45833455 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
45833476 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
45833497 AATCTCACCGC
1 AATCTCACCGC
45833508 CACCGTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:45835554 original size:13 final size:13
Alignment explanation
Indices: 45835517--45835583 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
45835507 AGTTCTTCGT
45835517 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
45835530 TACTTTTTGAAAAG
1 TGC-TTTTGAAAAG
* *
45835544 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
45835557 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
45835570 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
45835583 T
1 T
45835584 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
13 33 0.73
14 12 0.27
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:45836795 original size:11 final size:11
Alignment explanation
Indices: 45836779--45836803 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45836769 ACGCATATCT
45836779 GAAAATTAAAA
1 GAAAATTAAAA
45836790 GAAAATTAAAA
1 GAAAATTAAAA
45836801 GAA
1 GAA
45836804 CAAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (11 bp):
GAAAATTAAAA
Found at i:45842793 original size:41 final size:41
Alignment explanation
Indices: 45842758--45842956 Score: 233
Period size: 41 Copynumber: 4.9 Consensus size: 41
45842748 GTGAAATTGT
* *
45842758 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
45842799 TCGGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACG-CCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
45842840 TCAGGCTACAAGCCTAGCA-GCTAAATGCCGGTGAACTGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
45842880 TCAGGCTATAGGCCTAGCAGGCTAAGTGCCGGTGAACGGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
45842921 TTAGACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATACGCCTAGCAGGCT-AAGTGCCGGTGAA
45842957 TCTGTTTAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 40 0.29
41 96 0.70
42 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.21
Consensus pattern (41 bp):
TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:45842889 original size:81 final size:82
Alignment explanation
Indices: 45842771--45842941 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 82
45842761 GACTATACGT
* * *
45842771 CTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAA
1 CTAGCAGGCTAAATGCCGGTGAACTGAATCGGACTATA-GGCCTAGCAGGCTAAGTGCCGGTGAA
* *
45842835 CTGAATCAGGCTACAAGC
65 CGGAATCAGACTACAAGC
45842853 CTAGCA-GCTAAATGCCGGTGAACTGAATCAGG-CTATAGGCCTAGCAGGCTAAGTGCCGGTGAA
1 CTAGCAGGCTAAATGCCGGTGAACTGAATC-GGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAA
* *
45842916 CGGAATTAGACTATAAGC
65 CGGAATCAGACTACAAGC
*
45842934 CTATCAGG
1 CTAGCAGG
45842942 TGAAGTGCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
80 3 0.04
81 66 0.85
82 9 0.12
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (82 bp):
CTAGCAGGCTAAATGCCGGTGAACTGAATCGGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAAC
GGAATCAGACTACAAGC
Found at i:45843179 original size:31 final size:31
Alignment explanation
Indices: 45843144--45843205 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
45843134 TTGAAGTGTG
45843144 TATATGTATGCATTCGGCATAGGTGGATATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
*
45843175 TATATGTATGCATTCGGCATAGGTGGGTATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
45843206 AGTGAATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.35
Consensus pattern (31 bp):
TATATGTATGCATTCGGCATAGGTGGATATA
Found at i:45850634 original size:41 final size:41
Alignment explanation
Indices: 45850474--45850660 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 41
45850464 GACTATACGT
* * *
45850474 CTAGCAGGCTAAGTGCCGGTGAATTGAATC-GGACTACACGTC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTATAAG-C
*
45850516 C-AGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* *
45850556 CTAGCAGGCTAAGCGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* * * * * *
45850597 CTAGTAGGCTAAGTGTCGGTGGACGGAATTAGACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* *
45850638 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
45850661 TCTGTTTAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 3 0.02
41 118 0.95
42 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
Found at i:45850886 original size:31 final size:31
Alignment explanation
Indices: 45850848--45850909 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
45850838 TTTAAGTGTG
*
45850848 TATATGTATGCATTTGGCATAGGTGGATATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
*
45850879 TATATGTATGCATTCGGCATAGGTGGGTATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
45850910 AGTGAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.37
Consensus pattern (31 bp):
TATATGTATGCATTCGGCATAGGTGGATATA
Found at i:45876005 original size:25 final size:25
Alignment explanation
Indices: 45875977--45876125 Score: 126
Period size: 25 Copynumber: 6.0 Consensus size: 25
45875967 CCTGAAAAAT
* *
45875977 CTTTGTGGCATATTATCTGGAAAGC
1 CTTTGTGGCGTATTATATGGAAAGC
* * *
45876002 CTTTGTGGCGTATTATCTAGAAGGC
1 CTTTGTGGCGTATTATATGGAAAGC
**
45876027 CTTTGTGGC-TAATCT-TATTAAAAGC
1 CTTTGTGGCGT-AT-TATATGGAAAGC
* * *
45876052 CTTTGAGGCGTATTATTTGGAACGC
1 CTTTGTGGCGTATTATATGGAAAGC
*
45876077 CTTTGTGGC-TAGTCT-TATGAAAAGC
1 CTTTGTGGCGTA-T-TATATGGAAAGC
*
45876102 CTTTGTGGCGTATTGTATGGAAAG
1 CTTTGTGGCGTATTATATGGAAAG
45876126 ACTATCTAAC
Statistics
Matches: 99, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
24 5 0.05
25 89 0.90
26 5 0.05
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.37
Consensus pattern (25 bp):
CTTTGTGGCGTATTATATGGAAAGC
Found at i:45876052 original size:50 final size:50
Alignment explanation
Indices: 45875997--45876115 Score: 184
Period size: 50 Copynumber: 2.4 Consensus size: 50
45875987 TATTATCTGG
* *
45875997 AAAGCCTTTGTGGCGTATTATCTAGAAGGCCTTTGTGGCTAATCTTATTA
1 AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
* * * *
45876047 AAAGCCTTTGAGGCGTATTATTTGGAACGCCTTTGTGGCTAGTCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
45876097 AAAGCCTTTGTGGCGTATT
1 AAAGCCTTTGTGGCGTATT
45876116 GTATGGAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (50 bp):
AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
Found at i:45880897 original size:26 final size:26
Alignment explanation
Indices: 45880850--45880902 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
45880840 TAGTTCTTTG
* * *
45880850 AAAATCCTTTAAACTTCTAAAACTCT
1 AAAATCCTTAAAACCTCCAAAACTCT
* *
45880876 AAAATTCTTAAAACCTCCAAAATTCT
1 AAAATCCTTAAAACCTCCAAAACTCT
45880902 A
1 A
45880903 GACTCACTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATCCTTAAAACCTCCAAAACTCT
Found at i:45880899 original size:18 final size:17
Alignment explanation
Indices: 45880867--45880901 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45880857 TTTAAACTTC
*
45880867 TAAAACTCTAAAATTCT
1 TAAAACTCCAAAATTCT
45880884 TAAAACCTCCAAAATTCT
1 TAAAA-CTCCAAAATTCT
45880902 AGACTCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAACTCCAAAATTCT
Found at i:45881768 original size:85 final size:84
Alignment explanation
Indices: 45881625--45881797 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 84
45881615 TCAATTTCTG
45881625 TGCACTAGAATAGTTCTTGCTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
1 TGCACTAGAATAGTTCTTGCTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
45881690 CGCTATTTTGCAAAAAACAA
66 CGCTATTTTGCAAAAAA-AA
45881710 TGCACTAGAATAGTTCTTGCTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
1 TGCACTAGAATAGTTCTTGCTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
45881775 CGCTATTTTGCAAAAAAAA
66 CGCTATTTTGCAAAAAAAA
45881794 TGCA
1 TGCA
45881798 TTGGAACGTG
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 6 0.07
85 82 0.93
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (84 bp):
TGCACTAGAATAGTTCTTGCTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
CGCTATTTTGCAAAAAAAA
Found at i:45882757 original size:22 final size:22
Alignment explanation
Indices: 45882729--45882774 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
45882719 CAAAATTGGC
45882729 ATTAAGTTCTATATATTACACT
1 ATTAAGTTCTATATATTACACT
45882751 ATTAAGTTCTATATATTACACT
1 ATTAAGTTCTATATATTACACT
45882773 AT
1 AT
45882775 AAATAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTAAGTTCTATATATTACACT
Found at i:45883456 original size:19 final size:19
Alignment explanation
Indices: 45883432--45883470 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45883422 AATAATGCGA
45883432 TGTTAGATATTTTACCGTT
1 TGTTAGATATTTTACCGTT
*
45883451 TGTTAGATATTTTACTGTT
1 TGTTAGATATTTTACCGTT
45883470 T
1 T
45883471 ATTTAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (19 bp):
TGTTAGATATTTTACCGTT
Found at i:45890366 original size:22 final size:22
Alignment explanation
Indices: 45890334--45890385 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
45890324 GGGTAGGAAA
* * *
45890334 CTGCATTTGTATTTGATTTGTT
1 CTGCATCTGTATCTGATATGTT
*
45890356 TTGCATCTGTATCTGATATGTT
1 CTGCATCTGTATCTGATATGTT
45890378 CTGCATCT
1 CTGCATCT
45890386 TATATGAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.52
Consensus pattern (22 bp):
CTGCATCTGTATCTGATATGTT
Found at i:45892239 original size:24 final size:25
Alignment explanation
Indices: 45892212--45892260 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
45892202 TAACAGGTAA
*
45892212 CTCCGAAGAGCTAT-TATCAGGAAG
1 CTCCGAAGAGCCATGTATCAGGAAG
* *
45892236 CTCCGGATAGCCATGTATCAGGAAG
1 CTCCGAAGAGCCATGTATCAGGAAG
45892261 TTCAAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (25 bp):
CTCCGAAGAGCCATGTATCAGGAAG
Found at i:45892311 original size:25 final size:24
Alignment explanation
Indices: 45892251--45892319 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
45892241 GATAGCCATG
* **
45892251 TATCAGGAAGTTCA-AGTGAGCCA
1 TATCAGGAAGCTCATAAAGAGCCA
45892274 TATCAGGAAGCTCATAAAGAGCCTA
1 TATCAGGAAGCTCATAAAGAGCC-A
* *
45892299 TATCGGGATGCTCATAAAGAG
1 TATCAGGAAGCTCATAAAGAG
45892320 TTGCGGTATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.33
24 6 0.15
25 20 0.51
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (24 bp):
TATCAGGAAGCTCATAAAGAGCCA
Found at i:45897035 original size:19 final size:18
Alignment explanation
Indices: 45896989--45897034 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
45896979 TATATTTTTT
45896989 TAAATATTTTGATAATTA
1 TAAATATTTTGATAATTA
*
45897007 TTAATATTTTGATAATTTA
1 TAAATATTTTGATAA-TTA
45897026 TAAAT-TTTT
1 TAAATATTTT
45897035 TTATACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TAAATATTTTGATAATTA
Found at i:45899647 original size:25 final size:25
Alignment explanation
Indices: 45899600--45899652 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
45899590 TTTGTTATGT
* *
45899600 TATGCCATGATCTGATTTAATATTA
1 TATGCCATGATCTGATCTAATATAA
* * *
45899625 TATGCTATGGTCTGATCTGATATAA
1 TATGCCATGATCTGATCTAATATAA
45899650 TAT
1 TAT
45899653 ACTACGATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (25 bp):
TATGCCATGATCTGATCTAATATAA
Found at i:45906729 original size:29 final size:30
Alignment explanation
Indices: 45906678--45906738 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 30
45906668 TTGTATGAAA
45906678 ATATGTAAGTATGCATGCCATATGATTTATGAT
1 ATATGTAAGTATGCA--CCATATGA-TTATGAT
45906711 ATATGTAAGTATG-A-CATATGATTATGAT
1 ATATGTAAGTATGCACCATATGATTATGAT
45906739 TTGTTTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 7 0.25
29 7 0.25
32 1 0.04
33 13 0.46
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (30 bp):
ATATGTAAGTATGCACCATATGATTATGAT
Found at i:45906995 original size:5 final size:5
Alignment explanation
Indices: 45906986--45907080 Score: 52
Period size: 5 Copynumber: 19.0 Consensus size: 5
45906976 ATGTTATGCC
* * * * *
45906986 ATGAT TTGAT TTGAT ATGAT ATGAT ATGGT CTGAT CTGAT ATGAT AT-ACT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA-T
* * * * *
45907036 ATGAT -TCGAC ATAAC ATGAG AT-ATT ATGAT ATGAT AAGAT ATGAT
1 ATGAT AT-GAT ATGAT ATGAT ATGA-T ATGAT ATGAT ATGAT ATGAT
45907081 CCGTATAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
4 3 0.04
5 65 0.92
6 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:45923764 original size:67 final size:67
Alignment explanation
Indices: 45923638--45923771 Score: 159
Period size: 67 Copynumber: 2.0 Consensus size: 67
45923628 ATGGGTTGTA
* * *
45923638 ATGGGGTATAATGTGTAAGACTATAGCTCACCTATGACAACATAGGGAGTCCGCTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCACCTATGACAACATAGGGAGTCAGCTAGGACAATAA
45923703 AC
66 AC
* *
45923705 ATGGGGTATGATGTGTAAGACCATAGCTCGA-CTATGGA-AACAT-GGAGAGTCTATC-AGGACA
1 ATGGGGTATAATGTGTAAGACCATAGCTC-ACCTAT-GACAACATAGG-GAGTC-AGCTAGGACA
45923766 ATAAAC
62 ATAAAC
45923772 GCGGGGTAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
66 2 0.03
67 52 0.90
68 4 0.07
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCACCTATGACAACATAGGGAGTCAGCTAGGACAATAA
AC
Found at i:45931063 original size:21 final size:21
Alignment explanation
Indices: 45931039--45931078 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45931029 AAAATTAAGA
45931039 AAAAATAAAA-TAATAAAAATT
1 AAAAATAAAATTAA-AAAAATT
*
45931060 AAAATTAAAATTAAAAAAA
1 AAAAATAAAATTAAAAAAA
45931079 CCAAACTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAATAAAATTAAAAAAATT
Found at i:45931078 original size:15 final size:16
Alignment explanation
Indices: 45931029--45931067 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
45931019 GAATTTTGAA
45931029 AAAATTAAGAAAAAAT
1 AAAATTAAGAAAAAAT
* *
45931045 AAAA-TAATAAAAATT
1 AAAATTAAGAAAAAAT
45931060 AAAATTAA
1 AAAATTAA
45931068 AATTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATTAAGAAAAAAT
Found at i:45936065 original size:3 final size:3
Alignment explanation
Indices: 45936059--45936095 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
45936049 ATTAAGAAAT
45936059 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
45936096 CAGTATTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45936163 original size:22 final size:22
Alignment explanation
Indices: 45936135--45936179 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
45936125 TATTATTATA
*
45936135 TTTTATATATATT-CGTTTATTT
1 TTTTATATACATTAC-TTTATTT
45936157 TTTTATATACATTACTTTATTT
1 TTTTATATACATTACTTTATTT
45936179 T
1 T
45936180 ATATACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATATACATTACTTTATTT
Found at i:45950436 original size:18 final size:18
Alignment explanation
Indices: 45950409--45950470 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
45950399 AGTAAATAGA
45950409 AATATAATTAA-ATATAAT
1 AATATAATTAACA-ATAAT
*
45950427 AATATCATTAACAATAAT
1 AATATAATTAACAATAAT
* *
45950445 AA-AT-AGTAATAATAAT
1 AATATAATTAACAATAAT
45950461 AATA-AATTAA
1 AATATAATTAA
45950471 TTAATAGCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.32
17 7 0.19
18 17 0.46
19 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (18 bp):
AATATAATTAACAATAAT
Found at i:45953546 original size:21 final size:21
Alignment explanation
Indices: 45953507--45953547 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45953497 AAAATTAAGA
*
45953507 AAAATTAAAATAATAAAAATT
1 AAAATTAAAATAACAAAAATT
*
45953528 AAAATTAAAATAACCAAAAT
1 AAAATTAAAATAACAAAAAT
45953548 CCCAACTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATTAAAATAACAAAAATT
Found at i:45955816 original size:20 final size:20
Alignment explanation
Indices: 45955771--45955818 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45955761 TGAAAGTTTC
*
45955771 ACAAAATTACTACATCTCTT
1 ACAAAATTACTAAATCTCTT
** *
45955791 GTAAAATTACTAAATTTCTT
1 ACAAAATTACTAAATCTCTT
45955811 ACAAAATT
1 ACAAAATT
45955819 TTAAATTACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (20 bp):
ACAAAATTACTAAATCTCTT
Found at i:45956365 original size:26 final size:27
Alignment explanation
Indices: 45956308--45956358 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
45956298 TTCTAAATAG
* * *
45956308 AAAAGCTAAAACCAAAATTAAGATTAA
1 AAAAACTAAAACCAAAATTAAAATCAA
45956335 AAAAACTAAAA-CAAAATTAAAATC
1 AAAAACTAAAACCAAAATTAAAATC
45956359 CTAAAAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.18
Consensus pattern (27 bp):
AAAAACTAAAACCAAAATTAAAATCAA
Found at i:45974732 original size:15 final size:15
Alignment explanation
Indices: 45974709--45974739 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45974699 TAATTTGCTT
*
45974709 TTTTTATTAATATTA
1 TTTTCATTAATATTA
45974724 TTTTCATTAATATTA
1 TTTTCATTAATATTA
45974739 T
1 T
45974740 CACCATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTCATTAATATTA
Found at i:45974765 original size:3 final size:3
Alignment explanation
Indices: 45974757--45974798 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
45974747 AATGTCTATC
45974757 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45974799 GTGATTGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:45975256 original size:18 final size:18
Alignment explanation
Indices: 45975224--45975270 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
45975214 AAAAAATATC
* *
45975224 GAAAATT-ATTTTACTTT
1 GAAAATTAAATTTACTTA
45975241 GAAAATTAAATTTACTTA
1 GAAAATTAAATTTACTTA
*
45975259 GAAAATAAAATT
1 GAAAATTAAATT
45975271 GTTATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (18 bp):
GAAAATTAAATTTACTTA
Found at i:45977350 original size:67 final size:67
Alignment explanation
Indices: 45977210--45977354 Score: 200
Period size: 67 Copynumber: 2.2 Consensus size: 67
45977200 TCACCTGTGA
45977210 AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTAT
1 AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTAT
45977275 AG
66 AG
** ** * ** * *
45977277 CTACATAGAGAGTCCTCTAGGACATTAAACATGGGGTATGCTGTGTAAGATCATAGCTCTACTAT
1 AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTAT
*
45977342 GG
66 AG
45977344 AAACATAGAGA
1 AAACATAGAGA
45977355 ATCTGCAAGA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (67 bp):
AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTAT
AG
Found at i:45980233 original size:79 final size:80
Alignment explanation
Indices: 45980131--45980314 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
45980121 GCTCCTCGTT
* *
45980131 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
45980194 GGATTTAGTAAC-TCGCA
64 -GATATAGTAACTTAGCA
* **
45980211 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
* *
45980275 TATGGTCACTTAGCA
66 TATAGTAACTTAGCA
45980290 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45980315 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 20 0.22
79 56 0.62
80 15 0.16
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
TATAGTAACTTAGCA
Found at i:45980248 original size:39 final size:40
Alignment explanation
Indices: 45980131--45980314 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
45980121 GCTCCTCGTT
*
45980131 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
45980171 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
45980211 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
45980250 CAAATGCCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
45980290 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45980315 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 52 0.42
40 69 0.55
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:45988124 original size:78 final size:80
Alignment explanation
Indices: 45987998--45988177 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 80
45987988 GCTCCTCGTT
* *
45987998 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
45988062 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
45988078 CAAATGCCTTCGGG-CTTAGCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
45988141 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
45988157 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
45988178 CGGACATCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
77 4 0.05
78 50 0.57
79 19 0.22
80 14 0.16
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:45988181 original size:40 final size:40
Alignment explanation
Indices: 45987998--45988181 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
45987988 GCTCCTCGTT
* *
45987998 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
45988038 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
45988078 CAAATGCCTTCGGG-CTTAG-CCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
45988116 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
45988157 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45988182 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
37 2 0.02
38 27 0.22
39 9 0.07
40 75 0.60
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:45994162 original size:10 final size:10
Alignment explanation
Indices: 45994120--45994162 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
45994110 AAAAATAGTC
*
45994120 AAAATTAATC
1 AAAATTAATT
45994130 AAAATTAACTAT
1 AAAATTAA-T-T
45994142 AAAATTAATT
1 AAAATTAATT
*
45994152 AAAATTCATT
1 AAAATTAATT
45994162 A
1 A
45994163 TGTACATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:46006947 original size:20 final size:20
Alignment explanation
Indices: 46006924--46006966 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
46006914 GTAACCTTAT
* *
46006924 AAGAAATTTTGTAATGTTGA
1 AAGAAATTTAGTAATATTGA
**
46006944 AAGAGGTTTAGTAATATTGA
1 AAGAAATTTAGTAATATTGA
46006964 AAG
1 AAG
46006967 TGATCAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (20 bp):
AAGAAATTTAGTAATATTGA
Found at i:46010182 original size:20 final size:20
Alignment explanation
Indices: 46010157--46010224 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
46010147 TCGTACGGGA
**
46010157 TTGCACTTTGGTGCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
* *
46010177 TTGCACTTCAGTGCCTTTCT
1 TTGCACTTCAGTGCCTCTAT
* *
46010197 ATGCACTTCAGTCCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
46010217 TTGCACTT
1 TTGCACTT
46010225 TGGTGCCTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.13, C:0.29, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTAT
Found at i:46017457 original size:21 final size:20
Alignment explanation
Indices: 46017412--46017457 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
46017402 TGCCTAGGCT
46017412 GTGTGAAAGCTCACACACCC
1 GTGTGAAAGCTCACACACCC
*
46017432 ATGTGAAAGCT-ACACGTACCC
1 GTGTGAAAGCTCACAC--ACCC
46017453 GTGTG
1 GTGTG
46017458 GAGGAGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (20 bp):
GTGTGAAAGCTCACACACCC
Found at i:46029303 original size:51 final size:50
Alignment explanation
Indices: 46029142--46029320 Score: 175
Period size: 51 Copynumber: 3.5 Consensus size: 50
46029132 AGTTGCTAGA
* * *
46029142 TCACATGTGTAGTACTATGTGCAGGCTACTTCGTGTACTG--GAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGATGAA-AAT-GG
* * * * * *** *
46029192 TCGCATGTGTAGTACTATGTGCAGGCTACAATGCGTACCGGAT-AGCTTTGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATGA-AAATGG
*
46029243 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATGAAAATGG
46029294 TCACATGTGTAGTACTATGTGCAGGCT
1 TCACATGTGTAGTACTATGTGCAGGCT
46029321 GCTATGTGAA
Statistics
Matches: 102, Mismatches: 22, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
50 32 0.31
51 67 0.66
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGATGAAAATGG
Found at i:46033486 original size:49 final size:49
Alignment explanation
Indices: 46033430--46033523 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
46033420 ATTATGGAAA
* *
46033430 CACTCTTGATGGGATATACCTATGTGAGTGAAAGTGTGGCCACTTTTAG
1 CACTCTTGATGGAATATACCTATATGAGTGAAAGTGTGGCCACTTTTAG
* *
46033479 CACTCTTGATGGAATCTACCTATATGAGTGGAAGTGTGGCCACTT
1 CACTCTTGATGGAATATACCTATATGAGTGAAAGTGTGGCCACTT
46033524 CTAGGAGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (49 bp):
CACTCTTGATGGAATATACCTATATGAGTGAAAGTGTGGCCACTTTTAG
Found at i:46034563 original size:20 final size:19
Alignment explanation
Indices: 46034518--46034595 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
46034508 ACAAATTTGT
* *
46034518 AAATTACTAAATATCTTATG
1 AAATTACTAAATTTCTTA-C
* *
46034538 GAATTACTGAATTTCTTAC
1 AAATTACTAAATTTCTTAC
* * *
46034557 TAGATTATTATATTTCTTAC
1 -AAATTACTAAATTTCTTAC
46034577 AAATTTACTAAATTTCTTA
1 AAA-TTACTAAATTTCTTA
46034596 TGTTGAGGCA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 2 0.05
20 42 0.95
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (19 bp):
AAATTACTAAATTTCTTAC
Found at i:46035055 original size:21 final size:22
Alignment explanation
Indices: 46035016--46035058 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
46035006 TAGAAAAGCT
*
46035016 AAAACAAAAATCAAGATTAAAA
1 AAAACAAAAATCAACATTAAAA
*
46035038 AAAACTAAAA-CAACATTAAAA
1 AAAACAAAAATCAACATTAAAA
46035059 TCCTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAACAAAAATCAACATTAAAA
Found at i:46042613 original size:43 final size:42
Alignment explanation
Indices: 46042566--46042701 Score: 146
Period size: 43 Copynumber: 3.2 Consensus size: 42
46042556 GCGTCACTAA
**
46042566 CTTTAGCGGCGCTTTTCTCACAAACGCTACTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGACCAAGAC
* * * * *
46042609 CTTTAGCGGCGCTTTAACCACAAACGCCGCTATAGAACATGAG
1 CTTTAGCGGCGCTTT-TCCACAAACGCCGCTAAAGACCAAGAC
* * * *
46042652 CTTTAGTGGCGCTTTTCCTAAAAAGGCCGCTAAAGACAAAGAC
1 CTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGACCAAGAC
46042695 CTTTAGC
1 CTTTAGC
46042702 AGCTGTAATG
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 2 0.03
43 71 0.96
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGACCAAGAC
Found at i:46043985 original size:50 final size:50
Alignment explanation
Indices: 46043910--46044102 Score: 314
Period size: 50 Copynumber: 3.8 Consensus size: 50
46043900 ATTTAGGTAA
46043910 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
46043960 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
46044010 ATAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATAGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
46044060 AGTACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46044103 TGTTATGATC
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 97 0.73
51 35 0.27
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46051520 original size:50 final size:50
Alignment explanation
Indices: 46051445--46051637 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
46051435 ATTTGGGTAA
*
46051445 AGAGGTCCCATGTAAGACCATGTCTGGGACTTGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
46051495 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
46051545 ATAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATAGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
46051595 AGTACATCCCATGTAAGACCATGTCTGAGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46051638 TGTTATGATC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 94 0.73
51 34 0.27
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46053027 original size:43 final size:42
Alignment explanation
Indices: 46052966--46053066 Score: 157
Period size: 43 Copynumber: 2.4 Consensus size: 42
46052956 CGCTTTTTCC
* *
46052966 CACAAACGCCGCTAAAGAACATGATCTTTAGCAACGTTTTACT
1 CACAAACGCCGCTAAAGAACATGATCTTTAACAACGCTTTA-T
* *
46053009 CACAAACGCCACTAAAGAACATGATCTTTAACGACGCTTTAT
1 CACAAACGCCGCTAAAGAACATGATCTTTAACAACGCTTTAT
46053051 CACAAACGCCGCTAAA
1 CACAAACGCCGCTAAA
46053067 AGTACAATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 16 0.30
43 37 0.70
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.22
Consensus pattern (42 bp):
CACAAACGCCGCTAAAGAACATGATCTTTAACAACGCTTTAT
Found at i:46054735 original size:2 final size:2
Alignment explanation
Indices: 46054728--46054753 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46054718 AATAAATATA
46054728 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
46054754 TTAAATCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.