Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 60 of 356
Found at i:19244668 original size:96 final size:94
Alignment explanation
Indices: 19244536--19244994 Score: 792
Period size: 96 Copynumber: 4.8 Consensus size: 94
19244526 GTATATTTGA
19244536 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
19244601 ATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATGTGATAAGGCCTAATGGCCGATGTG
*
19244630 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
19244695 ATATATGTGATAAGGCTTAATGGCCGATGTG
64 ATATATGTGATAAGGCCTAATGGCCGATGTG
* *
19244726 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
19244791 ATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATGTGATAAGGCCTAATGGCCGATGTG
19244822 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
19244887 ATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATGTGATAAGGCCTAATGGCCGATGTG
*
19244918 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
19244983 AAATGTGATAAG
66 ATATGTGATAAG
19244995 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
94 119 0.34
96 183 0.53
98 45 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:19244698 original size:143 final size:143
Alignment explanation
Indices: 19244536--19244994 Score: 832
Period size: 143 Copynumber: 3.2 Consensus size: 143
19244526 GTATATTTGA
19244536 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
19244601 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
*
19244666 AATAGCCGATGTG
131 AATGGCCGATGTG
*
19244679 ATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
19244744 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
19244809 AATGGCCGATGTG
131 AATGGCCGATGTG
19244822 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
19244887 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
64 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
19244950 CTAATGGCCGATGTG
129 CTAATGGCCGATGTG
* *
19244965 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
19244995 TCCCGAAGGG
Statistics
Matches: 307, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
141 14 0.05
143 202 0.66
145 91 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
AATGGCCGATGTG
Found at i:19245163 original size:37 final size:37
Alignment explanation
Indices: 19245113--19245257 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
19245103 CCGAGCTCTA
* * *
19245113 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGAT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
19245150 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
19245187 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
19245224 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
19245258 AGCTAAAGGT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:19246804 original size:40 final size:40
Alignment explanation
Indices: 19246521--19246792 Score: 418
Period size: 40 Copynumber: 6.8 Consensus size: 40
19246511 GAGAATTGAG
*
19246521 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGGT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
19246561 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
19246601 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
19246641 AGTGATGTATCCGAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
19246681 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
19246721 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
19246761 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
19246793 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:19247084 original size:58 final size:57
Alignment explanation
Indices: 19247003--19247111 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
19246993 CGAATGATTA
* *
19247003 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
19247061 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
19247112 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:19247131 original size:58 final size:56
Alignment explanation
Indices: 19246980--19247137 Score: 153
Period size: 57 Copynumber: 2.8 Consensus size: 56
19246970 AATGAATAAG
* * * * *
19246980 AGCATTATGTGTGCGAAT-GATTAG-AGGCACTGTGTGTGCAAATTCTTTTAACCG
1 AGCACTATGTGTGCGAATCGATAAGTGGGCACTGTGTGTGCAAATTCTTTCAACCA
* * * *
19247034 AGCACTATGTGTGCGAAATCGGTAATTGAGGCACTGTGTGTGCGAGTTC-TTCAACCA
1 AGCACTATGTGTGCG-AATCGATAAGTG-GGCACTGTGTGTGCAAATTCTTTCAACCA
*
19247091 AGCACTATGTGTGCGAGATCGATCAGTGGGCACTAAGTGTGTG-AAAT
1 AGCACTATGTGTGCGA-ATCGATAAGTGGGCACT--GTGTGTGCAAAT
19247138 GAGATTCTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
54 14 0.17
55 3 0.04
56 10 0.12
57 31 0.37
58 25 0.30
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (56 bp):
AGCACTATGTGTGCGAATCGATAAGTGGGCACTGTGTGTGCAAATTCTTTCAACCA
Found at i:19248293 original size:85 final size:85
Alignment explanation
Indices: 19248150--19248328 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
19248140 GGCCGGCCAT
19248150 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
19248215 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
19248235 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
19248300 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
19248320 GGGCATGGG
1 GAGCATGGG
19248329 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:19250577 original size:47 final size:47
Alignment explanation
Indices: 19250523--19250932 Score: 685
Period size: 47 Copynumber: 8.6 Consensus size: 47
19250513 GTATATTTGA
19250523 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
19250570 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
19250617 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
19250666 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
19250713 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
19250760 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
19250809 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * *
19250856 ATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
19250903 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
19250933 TCCTGAAGGG
Statistics
Matches: 343, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
47 253 0.74
49 90 0.26
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:19250655 original size:96 final size:94
Alignment explanation
Indices: 19250523--19250932 Score: 685
Period size: 96 Copynumber: 4.3 Consensus size: 94
19250513 GTATATTTGA
19250523 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
19250588 ATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATGTGATAAGGCCGAATGGCCAATGTG
19250617 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
19250682 ATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATGTGATAAGGCCGAATGGCCAATGTG
* *
19250713 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
* *
19250778 ATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATGTGATAAGGCCGAATGGCCAATGTG
19250809 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
19250874 ATATGTGATAGGGCCGAGTGGCCAACGTG
66 ATATGTGATAAGGCCGAATGGCCAATGTG
* *
19250903 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
19250933 TCCTGAAGGG
Statistics
Matches: 299, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
94 115 0.38
96 184 0.62
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:19250781 original size:143 final size:143
Alignment explanation
Indices: 19250523--19250932 Score: 770
Period size: 143 Copynumber: 2.9 Consensus size: 143
19250513 GTATATTTGA
19250523 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
19250588 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
19250653 AATGGCCGATGTG
131 AATGGCCGATGTG
19250666 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
19250731 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
19250796 AATGGCCGATGTG
131 AATGGCCGATGTG
19250809 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
19250874 ATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
19250933 TCCTGAAGGG
Statistics
Matches: 263, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 252 0.96
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
AATGGCCGATGTG
Found at i:19251150 original size:37 final size:37
Alignment explanation
Indices: 19251051--19251152 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
19251041 CCGAGCTCTA
* * *
19251051 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGAGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGAGT
*
19251088 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGAGT
19251125 AAGACCCGATGACTACGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
19251153 CGTCCGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGCCCGAGT
Found at i:19252088 original size:70 final size:70
Alignment explanation
Indices: 19251975--19252115 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
19251965 CAAGCCCACT
19251975 ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
1 ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
19252040 GGAAA
66 GGAAA
* *
19252045 ATGGTTGGGGATTTCTTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAGACTCAGTGTGTAA
1 ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
19252110 GGAAA
66 GGAAA
19252115 A
1 A
19252116 CCCATTCAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.31, C:0.06, G:0.36, T:0.26
Consensus pattern (70 bp):
ATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGAGGAAACTCAGTGTGTAA
GGAAA
Found at i:19254118 original size:26 final size:26
Alignment explanation
Indices: 19254088--19254143 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
19254078 TGAAATTCCC
19254088 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19254114 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19254140 ATCA
1 ATCA
19254144 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19255496 original size:24 final size:24
Alignment explanation
Indices: 19255440--19255537 Score: 83
Period size: 24 Copynumber: 4.0 Consensus size: 24
19255430 CCACAGCTTG
* * *
19255440 TATGAGCTTACCGATATATCAGCTCG
1 TATGAGCTTACTG-T-TTTCAGCTCA
*
19255466 TAAGAGCTTACTGTTTTCAGCTCA
1 TATGAGCTTACTGTTTTCAGCTCA
* *
19255490 T-TGGAGCTTACCG-TTTCAGCTCG
1 TAT-GAGCTTACTGTTTTCAGCTCA
*
19255513 TATGAGCTTACTGTTCATCAGCTCA
1 TATGAGCTTACTGTT-TTCAGCTCA
19255538 GGACGAACTT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
23 19 0.33
24 20 0.34
25 8 0.14
26 11 0.19
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (24 bp):
TATGAGCTTACTGTTTTCAGCTCA
Found at i:19255510 original size:23 final size:23
Alignment explanation
Indices: 19255440--19255537 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 23
19255430 CCACAGCTTG
* *
19255440 TATGAGCTTACCGATATATCAGCTCG
1 TATGAGCTTACTG-T-T-TCAGCTCA
*
19255466 TAAGAGCTTACTGTTTTCAGCTCA
1 TATGAGCTTACTG-TTTCAGCTCA
* *
19255490 T-TGGAGCTTACCGTTTCAGCTCG
1 TAT-GAGCTTACTGTTTCAGCTCA
19255513 TATGAGCTTACTGTTCATCAGCTCA
1 TATGAGCTTACTGTT--TCAGCTCA
19255538 GGACGAACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
23 21 0.36
24 18 0.31
25 8 0.14
26 12 0.20
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
TATGAGCTTACTGTTTCAGCTCA
Found at i:19255520 original size:47 final size:51
Alignment explanation
Indices: 19255443--19255537 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 51
19255433 CAGCTTGTAT
*
19255443 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTT-TTCAGCTCATTG
1 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTCATCAGCTCATTG
*
19255493 GAGCTTACCG-T-T-TCAGCTCGTATGAGCTTACTGTTCATCAGCTCA
1 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTCATCAGCTCA
19255538 GGACGAACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 22 0.52
48 9 0.21
49 1 0.02
50 10 0.24
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (51 bp):
GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTCATCAGCTCATTG
Found at i:19256921 original size:19 final size:19
Alignment explanation
Indices: 19256879--19256918 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
19256869 ATTGAATGTG
* *
19256879 AATGAATGATATTTACTAA
1 AATGAATGACATTTAATAA
19256898 AATGAGATGACATTTAATAA
1 AATGA-ATGACATTTAATAA
19256918 A
1 A
19256919 TGATTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (19 bp):
AATGAATGACATTTAATAA
Found at i:19258135 original size:70 final size:70
Alignment explanation
Indices: 19258005--19258143 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
19257995 AAATTTATAA
* * *
19258005 AATAATCATTCTATTTAACTTTATTTTTTTCACTTTATTATTTTGAATTTTTGAATATTTTCATT
1 AATAATCATTCTATTTAACCTTATTTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
19258070 TTTAC
66 TTTAC
*
19258075 AATAATCATTTTATTTAACCTTATTTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
1 AATAATCATTCTATTTAACCTTATTTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
19258140 TTTA
66 TTTA
19258144 TATTAGTTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (70 bp):
AATAATCATTCTATTTAACCTTATTTTTTTCACTTTATTATCTAGAATTTTTGAATATTTTCATT
TTTAC
Found at i:19264505 original size:3 final size:3
Alignment explanation
Indices: 19264497--19264531 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
19264487 GGACCCTTCT
19264497 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19264532 CGTAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19269360 original size:75 final size:73
Alignment explanation
Indices: 19269240--19269630 Score: 428
Period size: 75 Copynumber: 5.3 Consensus size: 73
19269230 TGAACCATGA
* * * * * ** *
19269240 CTCCATTTTGAGACGCTTGC--TGATTTCTAAGATCTTCTTGGAGCCAGCTGTTGGTAAAGCAGA
1 CTCCATTTTGAGAAGCTTGCGATCATTTCTATGATCTTCTTGAAACCAATTGTTGGTAAAG-AGG
19269303 CACCATTGG
65 CACCATTGG
* * * * *
19269312 CTCCATTTTGAGAAGCTTGTCGGTCATTTCTTTGATCTTCTTGAAGCCAGTTGTTGGGAAAAGAG
1 CTCCATTTTGAGAAGCTTG-CGATCATTTCTATGATCTTCTTGAAACCAATTGTT-GGTAAAGAG
* *
19269377 ACACCAATGG
64 GCACCATTGG
* * *
19269387 CTCCATTTTGAGAAGCTTGCTGATGATTTCTACGATCTTCTTGAAACCAATTGTTTGTAAAAGAG
1 CTCCATTTTGAGAAGCTTGC-GATCATTTCTATGATCTTCTTGAAACCAATTGTTGGT-AAAGAG
*
19269452 GCTCCATTGG
64 GCACCATTGG
* * * *
19269462 CTCCTTTTTGAGCAGCTTGGTGATCATTT-TGATGATCTTCTTGAAACCAACTGTTGGTAAAAGA
1 CTCCATTTTGAGAAGCTT-GCGATCATTTCT-ATGATCTTCTTGAAACCAATTGTTGGT-AAAGA
19269526 GGCACCATTGG
63 GGCACCATTGG
* * *
19269537 CTCCATTTCGAGAAGCTTGCTGATCATTTCTATGATCTTCTTGAAACCAATTGTAGGGAAAAGAG
1 CTCCATTTTGAGAAGCTTGC-GATCATTTCTATGATCTTCTTGAAACCAATTGT-TGGTAAAGAG
*
19269602 GCACCATTTG
64 GCACCATTGG
19269612 CTCCATTTTGAGAAGCTTG
1 CTCCATTTTGAGAAGCTTG
19269631 GTCTTGCTGA
Statistics
Matches: 272, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
72 18 0.07
73 1 0.00
74 4 0.01
75 239 0.88
76 10 0.04
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (73 bp):
CTCCATTTTGAGAAGCTTGCGATCATTTCTATGATCTTCTTGAAACCAATTGTTGGTAAAGAGGC
ACCATTGG
Found at i:19269414 original size:150 final size:148
Alignment explanation
Indices: 19269240--19269630 Score: 475
Period size: 150 Copynumber: 2.6 Consensus size: 148
19269230 TGAACCATGA
* * * **
19269240 CTCCATTTTGAGACGCTTGC---TGATTTCTAAGATCTTCTTGGAGCCAGCTGTTGGTAAAGCAG
1 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTGGTAAAG-AG
* * * * **
19269302 ACACCATTGGCTCCATTTTGAGAAGCTTGTCGGTCATTTCT-TTGATCTTCTTGAAGCCAGTTGT
65 GCACCATTGGCTCCATTTTGAGAAGCTTGT-GATCATTT-TGATGATCTTCTTGAAACCAACTGT
19269366 TGGGAAAAGAGACACCAATGG
128 TGGGAAAAGAGACACCAATGG
* *
19269387 CTCCATTTTGAGAAGCTTGCTGATGATTTCTACGATCTTCTTGAAACCAATTGTTTGTAAAAGAG
1 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTGGT-AAAGAG
* * *
19269452 GCTCCATTGGCTCCTTTTTGAGCAGCTTGGTGATCATTTTGATGATCTTCTTGAAACCAACTGTT
65 GCACCATTGGCTCCATTTTGAGAAGCTT-GTGATCATTTTGATGATCTTCTTGAAACCAACTGTT
* * *
19269517 GGTAAAAGAGGCACCATTGG
129 GGGAAAAGAGACACCAATGG
* * * * *
19269537 CTCCATTTCGAGAAGCTTGCTGATCATTTCTATGATCTTCTTGAAACCAATTGTAGGGAAAAGAG
1 CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGT-TGGTAAAGAG
*
19269602 GCACCATTTGCTCCATTTTGAGAAGCTTG
65 GCACCATTGGCTCCATTTTGAGAAGCTTG
19269631 GTCTTGCTGA
Statistics
Matches: 208, Mismatches: 29, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
147 19 0.09
149 2 0.01
150 180 0.87
151 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (148 bp):
CTCCATTTTGAGAAGCTTGCTGATGATTTCTAAGATCTTCTTGAAACCAATTGTTGGTAAAGAGG
CACCATTGGCTCCATTTTGAGAAGCTTGTGATCATTTTGATGATCTTCTTGAAACCAACTGTTGG
GAAAAGAGACACCAATGG
Found at i:19273492 original size:39 final size:39
Alignment explanation
Indices: 19273449--19273530 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
19273439 GAAATCTAGT
*
19273449 TGAAGCACATAACTGCGAAACGGCAGCCCGAAGGCTAAC
1 TGAAGCACATAACTGCGAAACGGAAGCCCGAAGGCTAAC
* * *
19273488 TGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAAC
1 TGAAGCACATAACTGCGAAACGGAAGCCCGAAGGCTAAC
19273527 TGAA
1 TGAA
19273531 ACTCATCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.12
Consensus pattern (39 bp):
TGAAGCACATAACTGCGAAACGGAAGCCCGAAGGCTAAC
Found at i:19273514 original size:21 final size:21
Alignment explanation
Indices: 19273450--19273514 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
19273440 AAATCTAGTT
* *
19273450 GAAGCACATAACTGCGAAACG
1 GAAGCACATAAGTGCTAAACG
* ** *
19273471 GCAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
19273489 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
19273510 GAAGC
1 GAAGC
19273515 CCGGAGGCTA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 7 0.23
19 6 0.19
20 6 0.19
21 12 0.39
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:19274884 original size:37 final size:37
Alignment explanation
Indices: 19274834--19274912 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19274824 TTATTACGAA
* * *
19274834 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
19274871 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19274908 GTCTT
1 GTCTT
19274913 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19275109 original size:47 final size:47
Alignment explanation
Indices: 19275031--19275326 Score: 511
Period size: 47 Copynumber: 6.3 Consensus size: 47
19275021 CCCTTCGGGA
* * * * * *
19275031 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19275078 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19275125 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19275172 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19275219 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19275266 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19275313 CTTATCACATATAT
1 CTTATCACATATAT
19275327 TAGGCGTTAT
Statistics
Matches: 237, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 237 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19275330 original size:19 final size:19
Alignment explanation
Indices: 19275306--19275345 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
19275296 CACATCGGCC
19275306 ATTAGGCCTTATCACATAT
1 ATTAGGCCTTATCACATAT
*
19275325 ATTAGGCGTTATCACATAT
1 ATTAGGCCTTATCACATAT
19275344 AT
1 AT
19275346 ACACTTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (19 bp):
ATTAGGCCTTATCACATAT
Found at i:19275339 original size:66 final size:66
Alignment explanation
Indices: 19275259--19275392 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
19275249 CACATCGGCC
19275259 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
19275324 T
66 T
* *
19275325 ATTAGGCGTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
19275390 T
66 T
19275391 AT
1 AT
19275393 GCATGTTCAC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (66 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
T
Found at i:19280667 original size:24 final size:24
Alignment explanation
Indices: 19280640--19280686 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19280630 TGCTCTACTT
*
19280640 TTTATTGCTATTATCATTACTATA
1 TTTATTACTATTATCATTACTATA
* *
19280664 TTTATTATTATTATTATTACTAT
1 TTTATTACTATTATCATTACTAT
19280687 TATATAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTATTACTATTATCATTACTATA
Found at i:19281053 original size:3 final size:3
Alignment explanation
Indices: 19281045--19281089 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
19281035 CTATCAATAC
* *
19281045 TAT TAT TAT TA- TAT TGT TAT TAT TAC TAT TA- TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19281090 CTTTACCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:19281074 original size:20 final size:19
Alignment explanation
Indices: 19281045--19281088 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
19281035 CTATCAATAC
* *
19281045 TATTATTATTATATTGTTAT
1 TATTACTATTATATTATT-T
19281065 TATTACTATTATATTATTT
1 TATTACTATTATATTATTT
19281084 TATTA
1 TATTA
19281089 TCTTTACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTACTATTATATTATTT
Found at i:19283140 original size:51 final size:51
Alignment explanation
Indices: 19283059--19283155 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
19283049 TTGTTTGGGA
*
19283059 TTTGTTTTAAAATATAATAAATTATCTCATACCCTAGGTAAAAAAAATTTT
1 TTTGCTTTAAAATATAATAAATTATCTCATACCCTAGGTAAAAAAAATTTT
19283110 TTTGCTTTAAAATATAATAAATTATCTCATACCCTAGGTAAAAAAA
1 TTTGCTTTAAAATATAATAAATTATCTCATACCCTAGGTAAAAAAA
19283156 TTATGTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.38
Consensus pattern (51 bp):
TTTGCTTTAAAATATAATAAATTATCTCATACCCTAGGTAAAAAAAATTTT
Found at i:19283177 original size:14 final size:13
Alignment explanation
Indices: 19283147--19283189 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
19283137 CATACCCTAG
19283147 GTAAAAAAATTAT
1 GTAAAAAAATTAT
19283160 GTAAAAATATATTA-
1 GTAAAAA-A-ATTAT
19283174 GT-AAAAAATTAT
1 GTAAAAAAATTAT
19283186 GTAA
1 GTAA
19283190 TATACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 4 0.15
12 3 0.12
13 12 0.46
14 3 0.12
15 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (13 bp):
GTAAAAAAATTAT
Found at i:19288887 original size:5 final size:5
Alignment explanation
Indices: 19288877--19288931 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
19288867 ATAGAAGATA
* * *
19288877 TTATT TTATT TTGTT TTATC AT-TT TTATT TT-TAT TTATTT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT-T TTA-TT TTATT TTATT
19288927 TTATT
1 TTATT
19288932 ATTTTAGGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
4 3 0.08
5 32 0.80
6 4 0.10
7 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:19288904 original size:19 final size:17
Alignment explanation
Indices: 19288880--19288936 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
19288870 GAAGATATTA
19288880 TTTTATTTTGTTTTATCAT
1 TTTTATTTT-TTTTAT-AT
*
19288899 TTTTATTTTTATT-TAT
1 TTTTATTTTTTTTATAT
19288915 TTTTATTTTATTTTATTAT
1 TTTTATTTT-TTTTA-TAT
19288934 TTT
1 TTT
19288937 AGGATTAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 11 0.33
17 4 0.12
18 3 0.09
19 15 0.45
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTTTTATAT
Found at i:19291518 original size:18 final size:18
Alignment explanation
Indices: 19291491--19291536 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
19291481 GCCCGTACCT
*
19291491 GACACAAGTCGCGGCCAC
1 GACACAAGTCGCGCCCAC
*
19291509 GACACTAGTCGCGCCCAC
1 GACACAAGTCGCGCCCAC
* *
19291527 TACGCAAGTC
1 GACACAAGTC
19291537 AAGATAAGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.39, G:0.24, T:0.11
Consensus pattern (18 bp):
GACACAAGTCGCGCCCAC
Found at i:19307080 original size:22 final size:22
Alignment explanation
Indices: 19307047--19307093 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
19307037 AATCATGGTA
*
19307047 TTACAATG-AAAATTTGGGATTT
1 TTACAATGAAAAATCT-GGATTT
19307069 TTACAA-GAAAAAATCTGGATTT
1 TTACAATG-AAAAATCTGGATTT
19307091 TTA
1 TTA
19307094 TGTAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.05
22 15 0.68
23 6 0.27
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (22 bp):
TTACAATGAAAAATCTGGATTT
Found at i:19307135 original size:14 final size:13
Alignment explanation
Indices: 19307108--19307142 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
19307098 GAAAAATAAG
19307108 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
19307121 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
19307134 TTTTT-TTTG
1 TTTTTCTTTG
19307143 AGTTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTGTTT
Found at i:19307553 original size:22 final size:22
Alignment explanation
Indices: 19307520--19307566 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
19307510 AATCATGGTA
*
19307520 TTACAATG-AAAATTTGGGATTT
1 TTACAATGAAAAATCT-GGATTT
19307542 TTACAA-GAAAAAATCTGGATTT
1 TTACAATG-AAAAATCTGGATTT
19307564 TTA
1 TTA
19307567 TGTAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.05
22 15 0.68
23 6 0.27
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (22 bp):
TTACAATGAAAAATCTGGATTT
Found at i:19307607 original size:12 final size:13
Alignment explanation
Indices: 19307581--19307616 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
19307571 GAAAAATAAG
19307581 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
19307594 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
*
19307607 TTTTTTTTTG
1 TTTTTCTTTG
19307617 AGTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTGTTT
Found at i:19307735 original size:472 final size:468
Alignment explanation
Indices: 19306818--19307774 Score: 1797
Period size: 473 Copynumber: 2.0 Consensus size: 468
19306808 GCATTCAAAA
19306818 TAAAAAAATTACAAAAAGAGCATTGTAATTACAAATTATTTTCATTTTGGTCACCCACTAGTATT
1 TAAAAAAATTACAAAAAGAGCATTGTAATTACAAATTATTTTCATTTTGGTCACCCACTAGTATT
19306883 TGAGGTTAGAAAATATTATTGTGAACTCATTTTTGTCACTCATTTTATCTTTTTTAATAAATTGG
66 TGAGGTTAGAAAATATTATTGTGAACTCATTTTTGTCACTCATTTTATCTTTTTTAATAAATTGG
19306948 TATTTTAATCATTTATCTTTTTATTTTTTTTACTTTTAGAATTAATTTTAGTTTTTACTAAAAGG
131 TATTTTAATCATTTATCTTTTTATTTTTTTTACTTTTAGAATTAATTTTAGTTTTTACTAAAAGG
19307013 GAAAAACCCTGATTTTAGAGGGAAAATCATGGTATTACAATGAAAATTTGGGATTTTTACAAGAA
196 GAAAAACCCTGATTTTAGAGGGAAAATCATGGTATTACAATGAAAATTTGGGATTTTTACAAGAA
19307078 AAAATCTGGATTTTTATGTAGAAAAATAAGTTTTTCTTTGTTTTTTTTCTTTGTTTTTTTTTTTG
261 AAAATCTGGATTTTTATGTAGAAAAATAAGTTTTTCTTTGTTTTTTTTCTTTGTTTTTTTTTTTG
19307143 AGTTAAATTTTTTTCTAGTAAAAGGGTTTTACATGGAAATTAACTGAGCTTTTATTTAAAAAAAA
326 AGTTAAATTTTTTTCTAGTAAAAGGGTTTTACATGGAAATTAACTGAGCTTTTATTTAAAAAAAA
19307208 ACTTGGGTTTTTACATGTAAAAATCTATTTATTTTTATAATTTCTTTTATTTTATTTTTTAGAAA
391 ACTTGGGTTTTTACATGTAAAAATCTATTTATTTTTATAATTTC---T-TTTTATTTTTTAGAAA
19307273 TAATTTAAATTTTTCAG
452 TAATTTAAATTTTTCAG
19307290 TAAAAAAATTACAAAAAGAGCATTGTAATTACAAATTATTTTCATTTTGGTCACCCACTAGTATT
1 TAAAAAAATTACAAAAAGAGCATTGTAATTACAAATTATTTTCATTTTGGTCACCCACTAGTATT
19307355 TGAGGTTAGAAAATATTATTGTGAACTCATTTTTGTCACTCATTTTATCTTTTTTAATAAATTGG
66 TGAGGTTAGAAAATATTATTGTGAACTCATTTTTGTCACTCATTTTATCTTTTTTAATAAATTGG
19307420 TATTTTAATCATTTATCTTTTTATTTTTTTTTACTTTTAGAATTAATTTTAGTTTTTACTAAAAG
131 TATTTTAATCATTTATCTTTTTA-TTTTTTTTACTTTTAGAATTAATTTTAGTTTTTACTAAAAG
19307485 GGAAAAACCCTGATTTTAGAGGGAAAATCATGGTATTACAATGAAAATTTGGGATTTTTACAAGA
195 GGAAAAACCCTGATTTTAGAGGGAAAATCATGGTATTACAATGAAAATTTGGGATTTTTACAAGA
19307550 AAAAATCTGGATTTTTATGTAGAAAAATAAGTTTTTCTTTGTTTTTTTTCTTTGTTTTTTTTTTT
260 AAAAATCTGGATTTTTATGTAGAAAAATAAGTTTTTCTTTGTTTTTTTTCTTTG-TTTTTTTTTT
19307615 TGAGTTAAATTTTTTTTCTAGTAAAAGGGTTTTACATGGAAATTAACTGAGCTTTTATTTAAAAA
324 TGAGTTAAA-TTTTTTTCTAGTAAAAGGGTTTTACATGGAAATTAACTGAGCTTTTATTT--AAA
19307680 AAAAAACTTGGGTTTTTACATGTAAAAATCTATTTATTTTTATAATTTCTTTTATTTTATTTTTT
386 AAAAAACTTGGGTTTTTACATGTAAAAATCTATTTATTTTTATAATTTC---T-TTTTATTTTTT
19307745 AGAAATAATTTAAATTTTTCAG
447 AGAAATAATTTAAATTTTTCAG
19307767 TAAAAAAA
1 TAAAAAAA
19307775 AGGAAATCTA
Statistics
Matches: 480, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
472 153 0.32
473 160 0.33
474 19 0.04
475 50 0.10
477 98 0.20
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (468 bp):
TAAAAAAATTACAAAAAGAGCATTGTAATTACAAATTATTTTCATTTTGGTCACCCACTAGTATT
TGAGGTTAGAAAATATTATTGTGAACTCATTTTTGTCACTCATTTTATCTTTTTTAATAAATTGG
TATTTTAATCATTTATCTTTTTATTTTTTTTACTTTTAGAATTAATTTTAGTTTTTACTAAAAGG
GAAAAACCCTGATTTTAGAGGGAAAATCATGGTATTACAATGAAAATTTGGGATTTTTACAAGAA
AAAATCTGGATTTTTATGTAGAAAAATAAGTTTTTCTTTGTTTTTTTTCTTTGTTTTTTTTTTTG
AGTTAAATTTTTTTCTAGTAAAAGGGTTTTACATGGAAATTAACTGAGCTTTTATTTAAAAAAAA
ACTTGGGTTTTTACATGTAAAAATCTATTTATTTTTATAATTTCTTTTTATTTTTTAGAAATAAT
TTAAATTTTTCAG
Found at i:19316830 original size:18 final size:17
Alignment explanation
Indices: 19316792--19316830 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
19316782 TGTTTGAAAA
19316792 TTTTAATTAATTAAATTT
1 TTTTAATTAA-TAAATTT
19316810 TTTTAATTAA-AAATTT
1 TTTTAATTAATAAATTT
19316826 ATTTT
1 -TTTT
19316831 CATCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAAATTT
Found at i:19319495 original size:147 final size:147
Alignment explanation
Indices: 19319196--19319633 Score: 641
Period size: 147 Copynumber: 3.0 Consensus size: 147
19319186 ATAAGTAAAA
* * * * *
19319196 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATATTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTG
* * *
19319260 TTTTTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTATTTTTTTCGTATC
66 TTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTTTTTGTATC
19319324 TTATTTTTT-AAAATATAT
129 TTATTTTTTAAAAATATAT
* * *
19319342 TATTTTCGTATTTTATTTCTTCATGTTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTG
*
19319406 ATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTTGTATCT
66 TTTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTTGTATCT
19319471 TATTTTTTAAAAATATAT
130 TATTTTTTAAAAATATAT
*
19319489 TATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTG
*
19319554 TTTTTTTATATTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTTATTTTCGTA
66 TTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTT-TTTT-GTA
*
19319619 TATTATTTTATTAAA
127 TCTTATTTT-TTAAA
19319634 TTAATATAAT
Statistics
Matches: 263, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
145 3 0.01
146 80 0.30
147 108 0.41
148 42 0.16
149 10 0.04
150 4 0.02
151 11 0.04
152 5 0.02
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (147 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTG
TTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTTGTATCTT
ATTTTTTAAAAATATAT
Found at i:19324442 original size:13 final size:13
Alignment explanation
Indices: 19324424--19324448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19324414 AGCCTATACT
19324424 TTATTTTTTGTTA
1 TTATTTTTTGTTA
19324437 TTATTTTTTGTT
1 TTATTTTTTGTT
19324449 GTTTTGTTGC
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:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (13 bp):
TTATTTTTTGTTA
Found at i:19336536 original size:53 final size:53
Alignment explanation
Indices: 19336400--19336545 Score: 195
Period size: 53 Copynumber: 2.7 Consensus size: 53
19336390 TGTGCCTGTT
* ** *
19336400 TAAGACCGTAGCTGGGCTATGGCATCGGTGCAATGTAATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
19336453 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
19336506 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
19336546 ACCGTGTAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 75 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:19338221 original size:253 final size:253
Alignment explanation
Indices: 19337773--19338274 Score: 896
Period size: 253 Copynumber: 2.0 Consensus size: 253
19337763 CAAAACATAG
*
19337773 TATACTTAGGCAACCAAAACACCCACAATTGTGACCAACACATGCCAATACAATTGCAACATCTA
1 TATACTTAGGCAACCAAAACACCCACAATTATGACCAACACATGCCAATACAATTGCAACATCTA
*
19337838 TCATACTCACAACATTTATTATGCCCTAAATCAATCATGCAAATTGCACATTCATTAAGCCTCAA
66 TCATACTCACAACATTTATTATACCCTAAATCAATCATGCAAATTGCACATTCATTAAGCCTCAA
* *
19337903 TTTTCTACTTTCAAGACACCTAATTGTGCACAAATTTATCATCTCATCAATATATCATATTTCCA
131 TTTACTACTTTCAAGACACCTAATTGTGCACAAATTTATCATCTCATCAATATATCACATTTCCA
* * *
19337968 AACATTTCACATTCATGTTATGAATCACATTCTATCATTCACCAAGCATACCATATAA
196 AACAGTTCACATTCATGCTATGAATCACATTCCATCATTCACCAAGCATACCATATAA
19338026 TATACTTAGGCAACCAAAACACCCACAATTATGACCAACACATGCCAATACAATTGCAACATCTA
1 TATACTTAGGCAACCAAAACACCCACAATTATGACCAACACATGCCAATACAATTGCAACATCTA
* *
19338091 TCATACTCACAACATTTATTATACCCTAAATCAATCATGCAAATTTCACATTCATTAAGCCTCAG
66 TCATACTCACAACATTTATTATACCCTAAATCAATCATGCAAATTGCACATTCATTAAGCCTCAA
*
19338156 TTTACTACTTTTAAGACACCTAATTGTGCACAAATTTATCATCTCATCAATATATCACATTTCCA
131 TTTACTACTTTCAAGACACCTAATTGTGCACAAATTTATCATCTCATCAATATATCACATTTCCA
* *
19338221 AACAGTTCATATTCATGCTATGAATCACATTCCATCATTCATCAAGCATACCAT
196 AACAGTTCACATTCATGCTATGAATCACATTCCATCATTCACCAAGCATACCAT
19338275 GACTATATCA
Statistics
Matches: 237, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
253 237 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (253 bp):
TATACTTAGGCAACCAAAACACCCACAATTATGACCAACACATGCCAATACAATTGCAACATCTA
TCATACTCACAACATTTATTATACCCTAAATCAATCATGCAAATTGCACATTCATTAAGCCTCAA
TTTACTACTTTCAAGACACCTAATTGTGCACAAATTTATCATCTCATCAATATATCACATTTCCA
AACAGTTCACATTCATGCTATGAATCACATTCCATCATTCACCAAGCATACCATATAA
Found at i:19340963 original size:20 final size:21
Alignment explanation
Indices: 19340942--19340981 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19340932 TATAGATGCC
19340942 TTGTTATAGGTATCGATACCTT
1 TTGTTATAGGTATCGATACC-T
*
19340964 TTGTTTTA-GTATCGATAC
1 TTGTTATAGGTATCGATAC
19340982 TTGCCCCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (21 bp):
TTGTTATAGGTATCGATACCT
Found at i:19349572 original size:18 final size:17
Alignment explanation
Indices: 19349544--19349591 Score: 78
Period size: 18 Copynumber: 2.8 Consensus size: 17
19349534 TACAATATCA
19349544 ATTAATAAAATATTATT
1 ATTAATAAAATATTATT
*
19349561 ACTTATTAAAATATTATT
1 A-TTAATAAAATATTATT
19349579 ATTAATAAAATAT
1 ATTAATAAAATAT
19349592 CATTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAATAAAATATTATT
Found at i:19353754 original size:14 final size:14
Alignment explanation
Indices: 19353735--19353765 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
19353725 ACTAATGAAG
19353735 TCCATCTTATTCAC
1 TCCATCTTATTCAC
19353749 TCCATCTTATTCAC
1 TCCATCTTATTCAC
19353763 TCC
1 TCC
19353766 TACTTCCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (14 bp):
TCCATCTTATTCAC
Found at i:19355128 original size:47 final size:47
Alignment explanation
Indices: 19355075--19355251 Score: 220
Period size: 47 Copynumber: 3.8 Consensus size: 47
19355065 TGGTTGAACA
*
19355075 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
19355122 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
19355169 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
*
19355215 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19355252 GTGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 39 0.35
47 56 0.50
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:19359682 original size:8 final size:8
Alignment explanation
Indices: 19359669--19359701 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
19359659 AATTTAATAA
19359669 ATAATATT
1 ATAATATT
19359677 ATAATATT
1 ATAATATT
19359685 ATAATA-T
1 ATAATATT
19359692 ATAAATATT
1 AT-AATATT
19359701 A
1 A
19359702 GCCCACCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.13
8 18 0.78
9 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
ATAATATT
Found at i:19360041 original size:23 final size:23
Alignment explanation
Indices: 19359988--19360047 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
19359978 AATGTTCGGT
* * **
19359988 GTCCACCAGTCACATCGTCTGGC
1 GTCCACCAGTCACACCATCCAGC
* *
19360011 ATCTACCAGTCACACCATCCAGC
1 GTCCACCAGTCACACCATCCAGC
19360034 GTCCACCAAGTCAC
1 GTCCACC-AGTCAC
19360048 CATCTTAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.25, C:0.42, G:0.15, T:0.18
Consensus pattern (23 bp):
GTCCACCAGTCACACCATCCAGC
Found at i:19364019 original size:17 final size:18
Alignment explanation
Indices: 19363992--19364026 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
19363982 ATTATGTAGT
19363992 GATTCAATACTTTAATTC
1 GATTCAATACTTTAATTC
19364010 GATT-AATACTTTAATTC
1 GATTCAATACTTTAATTC
19364027 AGGTAATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (18 bp):
GATTCAATACTTTAATTC
Found at i:19365138 original size:20 final size:21
Alignment explanation
Indices: 19365099--19365139 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19365089 CTTGTCGACA
*
19365099 ATACTGGCAGCTTGTTTGCAT
1 ATACTGGCAGCTTATTTGCAT
*
19365120 ATACTGGCA-TTTATTTGCAT
1 ATACTGGCAGCTTATTTGCAT
19365140 TATTGTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (21 bp):
ATACTGGCAGCTTATTTGCAT
Found at i:19366535 original size:128 final size:129
Alignment explanation
Indices: 19366306--19366555 Score: 421
Period size: 128 Copynumber: 1.9 Consensus size: 129
19366296 TTAATACTGT
*
19366306 AAATAAATTATATTATTTGGAGAGTATTATATTTTTTAAATAAAAATATAAAAATAATAAGATTT
1 AAATAAATTATATTATTTGGAGAGTATTATATTTTTTAAACAAAAATATAAAAATAATAAGATTT
* *
19366371 AAATTTAAAGCACTGTATTTTGATGATTTGTACTTTACCATTTCAACTAGATTCTTATTTTATA
66 AAATTTAAAACACTGTATTTTGAAGATTTGTACTTTACCATTTCAACTAGATTCTTATTTTATA
* * *
19366435 AAATAAATTATATTATTTTGAGAGTGTTATA-TTTTTACACAAAAATATAAAAATAATAAGATTT
1 AAATAAATTATATTATTTGGAGAGTATTATATTTTTTAAACAAAAATATAAAAATAATAAGATTT
* *
19366499 AAGTTTAAAACACTGTATTTTGAAGATTTGTACTTTACCATTTCAACTGGATTCTTA
66 AAATTTAAAACACTGTATTTTGAAGATTTGTACTTTACCATTTCAACTAGATTCTTA
19366556 CTTATTTTTA
Statistics
Matches: 113, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
128 84 0.74
129 29 0.26
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (129 bp):
AAATAAATTATATTATTTGGAGAGTATTATATTTTTTAAACAAAAATATAAAAATAATAAGATTT
AAATTTAAAACACTGTATTTTGAAGATTTGTACTTTACCATTTCAACTAGATTCTTATTTTATA
Found at i:19388653 original size:17 final size:17
Alignment explanation
Indices: 19388631--19388664 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19388621 TAAATCATTC
19388631 ATTAAAAA-ATTATAAAA
1 ATTAAAAATATTA-AAAA
19388648 ATTAAAAATATTAAAAA
1 ATTAAAAATATTAAAAA
19388665 GATAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAAATATTAAAAA
Found at i:19388663 original size:8 final size:8
Alignment explanation
Indices: 19388631--19388664 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
19388621 TAAATCATTC
19388631 ATTAAAAA
1 ATTAAAAA
19388639 ATTATAAAA
1 ATTA-AAAA
19388648 ATTAAAAA
1 ATTAAAAA
19388656 TATTAAAAA
1 -ATTAAAAA
19388665 GATAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
ATTAAAAA
Found at i:19391040 original size:33 final size:33
Alignment explanation
Indices: 19391013--19391078 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
19391003 AAAAAAACCC
19391013 AAAACAACAA-AAATAGCAGCAGCAAAAACAACA
1 AAAACAACAACAAA-AGCAGCAGCAAAAACAACA
* * *
19391046 AAAACAACAACAAAATCAGTAGCAAAAGCAACA
1 AAAACAACAACAAAAGCAGCAGCAAAAACAACA
19391079 CCAAAATACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.65, C:0.21, G:0.09, T:0.05
Consensus pattern (33 bp):
AAAACAACAACAAAAGCAGCAGCAAAAACAACA
Found at i:19397723 original size:18 final size:18
Alignment explanation
Indices: 19397685--19397730 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
19397675 TTTCTTTTAC
19397685 ATTATTATTTTTTAAACT
1 ATTATTATTTTTTAAACT
*
19397703 ATTATATATTTTTTATA-T
1 ATTAT-TATTTTTTAAACT
19397721 ATTATGTATT
1 ATTAT-TATT
19397731 CTAAATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTATTATTTTTTAAACT
Found at i:19397737 original size:61 final size:60
Alignment explanation
Indices: 19397652--19397770 Score: 152
Period size: 61 Copynumber: 1.9 Consensus size: 60
19397642 GTTTAAATTA
* *
19397652 TTTTATATGTTATTTACTTCAAATTTCTTTTACATTATTATTT-TTTAAACTATTATATATT
1 TTTTATATATTATGTACTTCAAATTTCTTTT-CA-TATTATTTATTTAAACTATTATATATT
* *
19397713 TTTTATATATTATGTA-TTCTAAATTTCTTTTTATATTATTTAGTTTAAACTTTTATAT
1 TTTTATATATTATGTACTTC-AAATTTCTTTTCATATTATTTA-TTTAAACTATTATAT
19397771 GTCATTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
59 8 0.16
60 4 0.08
61 39 0.76
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (60 bp):
TTTTATATATTATGTACTTCAAATTTCTTTTCATATTATTTATTTAAACTATTATATATT
Found at i:19397793 original size:13 final size:13
Alignment explanation
Indices: 19397774--19397812 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19397764 TTTATATGTC
19397774 ATTTTAAATTGTT
1 ATTTTAAATTGTT
*
19397787 TTTTTAAATTAGTT
1 ATTTTAAATT-GTT
*
19397801 ATTTTAGATTGT
1 ATTTTAAATTGT
19397813 CTATATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
ATTTTAAATTGTT
Found at i:19401531 original size:19 final size:19
Alignment explanation
Indices: 19401507--19401554 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
19401497 ACGCCTCTTT
*
19401507 TTACA-TTCATTCATTTGCA
1 TTACATTTCA-TCATATGCA
19401526 TTACATTTCATCATATGCA
1 TTACATTTCATCATATGCA
*
19401545 TTAAATTTCA
1 TTACATTTCA
19401555 CGAAAAGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (19 bp):
TTACATTTCATCATATGCA
Found at i:19409675 original size:44 final size:44
Alignment explanation
Indices: 19409624--19409734 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
19409614 AATCACCATG
*
19409624 ACGAATCTTGTCTCCCTGAAGTTGTAGTGAAACAGATTGAAGTG
1 ACGAATCTTGTCTCCCTGAAGTTGTAGTGAAACAGATTGAAGTC
* * * *
19409668 GCGAATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGTC
1 ACGAATCTTGTCTCCCTGAAGTTGTAGTGAAACAGATTGAAGTC
* *
19409712 ACGAATCTTATCTCTCTGAAGTT
1 ACGAATCTTGTCTCCCTGAAGTT
19409735 ACAGTAGAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (44 bp):
ACGAATCTTGTCTCCCTGAAGTTGTAGTGAAACAGATTGAAGTC
Found at i:19410233 original size:182 final size:183
Alignment explanation
Indices: 19409713--19410472 Score: 1155
Period size: 182 Copynumber: 4.1 Consensus size: 183
19409703 ATTGAAGTCA
* * * *
19409713 CGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCAAAGCTACATATTACAGAGTCTTATCTC
1 CGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG-T-C-----ACAGAGTCTTATCTC
* *
19409778 CCTGAAGTTGCAGTAGAGCAAACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
59 CCTGAAGTTGCAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
*
19409843 GATTAAAGCTATAAATCCTATACCTATGAAGTTGCAGTAGGTTGGATCAAGTTACCATGG
124 GATTAAAGCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGTTACCATGG
* *
19409903 CGAATCTCATCTCCCTGAAGTTACAGTGGAGAAGATTAAAGTCACAGAGTCTTATCTCCCTGAAG
1 CGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACAGAGTCTTATCTCCCTGAAG
* *
19409968 TTGCAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATTAAA
66 TTGCAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
*
19410033 GCTATAAATCCTATACCTCTGGAGTTGCAGTAGGTTGGATCAAGTTACCATGG
131 GCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGTTACCATGG
* * * * *
19410086 CGAATCTCATCTCTCTGAAGTTACAGTGGAGCAGATTAAAGTCATA-AGTCTTATTTCCCTAAAG
1 CGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACAGAGTCTTATCTCCCTGAAG
* *
19410150 TTGTAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCATATTAAA
66 TTGCAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
*
19410215 GCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGTTACCGTGG
131 GCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGTTACCATGG
* * *
19410268 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTAAAGTCACAG-GTCTTATCTCCCTGAAG
1 CGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACAGAGTCTTATCTCCCTGAAG
* *
19410332 TTACAGTGGAGCAGACTCAATATAGGAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
66 TTGCAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
* ** * *
19410397 GCTATAAATCCTATACCTTTGAAGTTGCAGTAGGTCAGATCAAATCTATCATGG
131 GCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGT-TACCATGG
*
19410451 CGAATCTTATCTCCCTAAAGTT
1 CGAATCTTATCTCCCTGAAGTT
19410473 TTAGTGGACT
Statistics
Matches: 527, Mismatches: 41, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
182 285 0.54
183 204 0.39
188 1 0.00
189 1 0.00
190 36 0.07
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (183 bp):
CGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACAGAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
GCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGTTACCATGG
Found at i:19410452 original size:365 final size:371
Alignment explanation
Indices: 19409713--19410472 Score: 1185
Period size: 365 Copynumber: 2.1 Consensus size: 371
19409703 ATTGAAGTCA
*
19409713 CGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCAAAGCTACATATTACAGAGTCTTATCTC
1 CGAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAGCTACA-ATTA-AGAGTCTTATCTC
*
19409778 CCTGAAGTTGCAGTAGAGCAAACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
64 CCTAAAGTTGCAGTAGAGCAAACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
*
19409843 GATTAAAGCTATAAATCCTATACCTATGAAGTTGCAGTAGGTTGGATCAAGTTACCATGGCGAAT
129 GATTAAAGCTATAAATCCTATACCTATGAAGTTGCAGTAGGTTGGATCAAGTTACCATGGCAAAT
* *
19409908 CTCATCTCCCTGAAGTTACAGTGGAGAAGATTAAAGTCACAGAGTCTTATCTCCCTGAAGTTGCA
194 CTCATCTCCCTAAAGTTACAGTGGAGAAGATTAAAGTCACAGAGTCTTATCTCCCTGAAGTTACA
*
19409973 GTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATTAAAGCTAT
259 GTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTAT
* ** *
19410038 AAATCCTATACCTCTGGAGTTGCAGTAGGTTGGATCAAGTTACCATGG
324 AAATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAAATTACCATGG
* * * *
19410086 CGAATCTCATCTCTCTGAAGTTACAGTGGAGCAGATTAAAG-T-C-A-T-A-AGTCTTATTTCCC
1 CGAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAGCTACAATTAAGAGTCTTATCTCCC
* * * *
19410145 TAAAGTTGTAGTGGAGCAGACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCATA
66 TAAAGTTGCAGTAGAGCAAACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* *
19410210 TTAAAGCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGTTACCGTGGCAAATCT
131 TTAAAGCTATAAATCCTATACCTATGAAGTTGCAGTAGGTTGGATCAAGTTACCATGGCAAATCT
*
19410275 TATCTCCCTAAAGTTACAGTGGAGCAA-ATTAAAGTCACAG-GTCTTATCTCCCTGAAGTTACAG
196 CATCTCCCTAAAGTTACAGTGGAG-AAGATTAAAGTCACAGAGTCTTATCTCCCTGAAGTTACAG
* *
19410338 TGGAGCAGACTCAATATAGGAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
260 TGGAGCAGACTCAATATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATA
* *
19410403 AATCCTATACCTTTGAAGTTGCAGTAGGTCAGATCAAATCTATCATGG
325 AATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAAAT-TACCATGG
* *
19410451 CGAATCTTATCTCCCTAAAGTT
1 CGAATCTTATCTCTCTGAAGTT
19410473 TTAGTGGACT
Statistics
Matches: 357, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
364 118 0.33
365 195 0.55
366 3 0.01
368 1 0.00
369 1 0.00
371 1 0.00
372 1 0.00
373 37 0.10
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (371 bp):
CGAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAGCTACAATTAAGAGTCTTATCTCCC
TAAAGTTGCAGTAGAGCAAACTCAATATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
TTAAAGCTATAAATCCTATACCTATGAAGTTGCAGTAGGTTGGATCAAGTTACCATGGCAAATCT
CATCTCCCTAAAGTTACAGTGGAGAAGATTAAAGTCACAGAGTCTTATCTCCCTGAAGTTACAGT
GGAGCAGACTCAATATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAA
ATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAAATTACCATGG
Found at i:19412241 original size:61 final size:60
Alignment explanation
Indices: 19412115--19412242 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
19412105 TATTACTCGG
* * * *
19412115 TTTAAATTTTTTTATATGTTATTTACTTCAAATTTCTTTTACATTATTATTTTTTAAACT
1 TTTATATTTTTTTATATATTATGTACTTCAAAATTCTTTTACATTATTATTTTTTAAACT
* **
19412175 ATTATATTTTTTTATATATTATGTA-TTCTAAAATTCTTTTTTA-TATTATTTAGTTTAAACT
1 TTTATATTTTTTTATATATTATGTACTTC-AAAATTCTTTTACATTATTATTT--TTTAAACT
19412236 TTTATAT
1 TTTATAT
19412243 GTCATTTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
59 11 0.19
60 32 0.56
61 14 0.25
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (60 bp):
TTTATATTTTTTTATATATTATGTACTTCAAAATTCTTTTACATTATTATTTTTTAAACT
Found at i:19421764 original size:11 final size:11
Alignment explanation
Indices: 19421748--19421778 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19421738 CTATTTCAAC
*
19421748 ATAAAATTAAA
1 ATAAAATAAAA
19421759 ATAAAATAAAA
1 ATAAAATAAAA
19421770 ATAAAATAA
1 ATAAAATAA
19421779 GATTTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:19421769 original size:16 final size:16
Alignment explanation
Indices: 19421748--19421778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19421738 CTATTTCAAC
*
19421748 ATAAAATTAAAATAAA
1 ATAAAAATAAAATAAA
19421764 ATAAAAATAAAATAA
1 ATAAAAATAAAATAA
19421779 GATTTTTTCT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAAATAAAATAAA
Found at i:19422535 original size:4 final size:4
Alignment explanation
Indices: 19422526--19422573 Score: 69
Period size: 4 Copynumber: 11.2 Consensus size: 4
19422516 AACTTGAGCC
19422526 TTTA TTTA TTTA TTTA TTTA TTTTCA TTTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA -TTT-A -TTTA TTTA TTTA TTTA TTTA T
19422574 GTACAAGCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 33 0.79
5 4 0.10
6 5 0.12
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:19425157 original size:49 final size:49
Alignment explanation
Indices: 19425089--19425204 Score: 128
Period size: 49 Copynumber: 2.4 Consensus size: 49
19425079 TTTTCTTTTC
* * * * *
19425089 TTTTCTTTTTTTCACTTTTCCTTGT-GGCTAGTTAGGCC-TTCTTGTCCAT
1 TTTTCTTTTTTT-TCTTTTTCTTGTGGGCTAGTTAGGCCATTC-GGCCCAA
* *
19425138 TTTTCTTTTTTTTCTTTTTCTTTTGGGCTTGTTAGGCCATTCGGCCCAA
1 TTTTCTTTTTTTTCTTTTTCTTGTGGGCTAGTTAGGCCATTCGGCCCAA
*
19425187 TTTTCTTTCTTTTCTTTT
1 TTTTCTTTTTTTTCTTTT
19425205 CTTTTTCCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
48 9 0.16
49 45 0.79
50 3 0.05
ACGTcount: A:0.07, C:0.21, G:0.13, T:0.59
Consensus pattern (49 bp):
TTTTCTTTTTTTTCTTTTTCTTGTGGGCTAGTTAGGCCATTCGGCCCAA
Found at i:19427239 original size:20 final size:20
Alignment explanation
Indices: 19427214--19427254 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19427204 TAATTGCTTT
* *
19427214 GGGCAACATTCAAAGTCTTA
1 GGGCAACATCCAAAGTATTA
19427234 GGGCAACATCCAAAGTATTA
1 GGGCAACATCCAAAGTATTA
19427254 G
1 G
19427255 ACGGATAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (20 bp):
GGGCAACATCCAAAGTATTA
Found at i:19439867 original size:18 final size:20
Alignment explanation
Indices: 19439840--19439888 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
19439830 TGAAATATAA
* *
19439840 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
19439861 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
19439881 T-AAATAAT
1 TAAAATAAT
19439889 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:19439877 original size:20 final size:21
Alignment explanation
Indices: 19439819--19439899 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
19439809 TAATTAATAA
*
19439819 TAAAATAATAATGAA-ATATAA-
1 TAAAATAATAA--AATATCTAAT
*
19439840 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
19439861 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
19439881 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
19439900 ATCAACATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
19 2 0.04
20 14 0.29
21 22 0.45
22 5 0.10
23 6 0.12
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.33
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:19441319 original size:55 final size:53
Alignment explanation
Indices: 19441178--19441319 Score: 140
Period size: 55 Copynumber: 2.6 Consensus size: 53
19441168 GTGCAAGCCC
* * *
19441178 CACGCCCGTGTTCTTTTAACAGGTTCGACCACGGGTGTTAGACACGGGCATGTCG
1 CACGCCCGTGTTGTTTT--CAGGTTCGACCACGGGTCTTACACACGGGCATGTCG
* * * * * *
19441233 CACGCCCGTGCTAGTTTCTCAGTTTCAACCACGGGTCTTCCATACGGGCGTGTCG
1 CACGCCCGTG-TTGTTT-TCAGGTTCGACCACGGGTCTTACACACGGGCATGTCG
*
19441288 CACGCCCGTGTTGTTTTGGCAGGCTCGACCAC
1 CACGCCCGTGTTGTTTT--CAGGTTCGACCAC
19441320 AGCCATATCG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
53 1 0.01
54 5 0.07
55 59 0.84
56 4 0.06
57 1 0.01
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.26
Consensus pattern (53 bp):
CACGCCCGTGTTGTTTTCAGGTTCGACCACGGGTCTTACACACGGGCATGTCG
Found at i:19449014 original size:21 final size:21
Alignment explanation
Indices: 19448990--19449036 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19448980 TAAATTTATT
*
19448990 TATTAAATTTCTTATTATTAC
1 TATTAAATTTATTATTATTAC
** *
19449011 TATTATTTTTATTTTTATTAC
1 TATTAAATTTATTATTATTAC
19449032 TATTA
1 TATTA
19449037 TTACACTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTAAATTTATTATTATTAC
Found at i:19449214 original size:18 final size:18
Alignment explanation
Indices: 19449191--19449250 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
19449181 TTTTTAATAC
* *
19449191 TATATTATGTATATATTT
1 TATATTATATATATATTA
19449209 TATATTATATATATATTA
1 TATATTATATATATATTA
* *
19449227 TATA-TATATTTTTATGTA
1 TATATTATATATATAT-TA
19449245 TATATT
1 TATATT
19449251 TTTAATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 9 0.25
18 26 0.72
19 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TATATTATATATATATTA
Found at i:19449219 original size:14 final size:14
Alignment explanation
Indices: 19449200--19449252 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
19449190 CTATATTATG
19449200 TATATATTTTATAT
1 TATATATTTTATAT
19449214 TATATATATATTATA-
1 TATATAT-T-TTATAT
19449229 TATATATTTT-TAT
1 TATATATTTTATAT
19449242 GTATATATTTT
1 -TATATATTTT
19449253 TAATATCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.06
13 2 0.06
14 18 0.51
15 8 0.23
16 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
TATATATTTTATAT
Found at i:19449258 original size:29 final size:29
Alignment explanation
Indices: 19449169--19449249 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
19449159 AATGTGTATG
*
19449169 TATTATATATA-ATTTT-TA--ATA-CTA
1 TATTATATATATATTTTATATTATATATA
*
19449193 TATTATGTATATATTTTATATTATATATA
1 TATTATATATATATTTTATATTATATATA
19449222 TATTATATATATATTTT-TATGTATATAT
1 TATTATATATATATTTTATAT-TATATAT
19449250 TTTTAATATC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 10 0.21
25 5 0.10
26 2 0.04
28 6 0.12
29 25 0.52
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (29 bp):
TATTATATATATATTTTATATTATATATA
Found at i:19449618 original size:26 final size:26
Alignment explanation
Indices: 19449588--19449639 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
19449578 ATTATGTATA
*
19449588 TATTTTTAATACTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
* *
19449614 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
19449640 AATACATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTTCTAATACTACGTATATATTTT
Found at i:19449649 original size:26 final size:26
Alignment explanation
Indices: 19449600--19449660 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
19449590 TTTTTAATAC
* *
19449600 TACGTATATATTTTTATTTCTATTAT
1 TACGTATATATTTTTAATACTATTAT
19449626 TACGTATATA-TTTTAATAC-A-TAT
1 TACGTATATATTTTTAATACTATTAT
*
19449649 T-TGTATATATTT
1 TACGTATATATTT
19449661 ATATATCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.23
23 6 0.19
24 1 0.03
25 7 0.23
26 10 0.32
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (26 bp):
TACGTATATATTTTTAATACTATTAT
Found at i:19449848 original size:15 final size:15
Alignment explanation
Indices: 19449828--19449859 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19449818 TTATTATCGC
19449828 TTTATACTATTATTA
1 TTTATACTATTATTA
*
19449843 TTTATATTATTATTA
1 TTTATACTATTATTA
19449858 TT
1 TT
19449860 ATCGTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:19452685 original size:63 final size:63
Alignment explanation
Indices: 19452584--19452784 Score: 208
Period size: 63 Copynumber: 3.2 Consensus size: 63
19452574 CACAAACACA
*
19452584 CAATCATTCCCTACATCAACATATACAACACCAGTTTATTTTACACAAGCACCATCT-CACGCG
1 CAATCATTCCCTACAACAACATATACAACACCAGTTTATTTTACACAAGCACCA-CTGCACGCG
* * * * *
19452647 CAATCATTTCCTGCAACAACATA-ACAATCACTATTTTATTTTACACAAGCACCACTGCACGTG
1 CAATCATTCCCTACAACAACATATACAA-CACCAGTTTATTTTACACAAGCACCACTGCACGCG
* * * * * * * * * * **
19452710 CAACCATTCCTTACACCGACGTATTCATCACCAATTTATTTCACACAAGCATCACAACACGCG
1 CAATCATTCCCTACAACAACATATACAACACCAGTTTATTTTACACAAGCACCACTGCACGCG
19452773 CAATCATTCCCT
1 CAATCATTCCCT
19452785 GCACCGACAC
Statistics
Matches: 111, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
62 6 0.05
63 103 0.93
64 2 0.02
ACGTcount: A:0.34, C:0.33, G:0.07, T:0.26
Consensus pattern (63 bp):
CAATCATTCCCTACAACAACATATACAACACCAGTTTATTTTACACAAGCACCACTGCACGCG
Found at i:19452790 original size:63 final size:62
Alignment explanation
Indices: 19452584--19452814 Score: 203
Period size: 63 Copynumber: 3.7 Consensus size: 62
19452574 CACAAACACA
* * * *
19452584 CAATCATTCCCTACATCAACATATACAACACCAGTTTATTTTACACAAGCACCATCTCACGCG
1 CAATCATTCCCTACACCAACATATACATCACCAATTTATTTTACACAAGCACCA-CACACGCG
* * * * * * *
19452647 CAATCATTTCCTGCAACAACATA-ACAATCACTATTTTATTTTACACAAGCACCACTGCACGTG
1 CAATCATTCCCTACACCAACATATAC-ATCACCAATTTATTTTACACAAGCACCAC-ACACGCG
* * * * * * *
19452710 CAACCATTCCTTACACCGACGTATTCATCACCAATTTATTTCACACAAGCATCACAACACGCG
1 CAATCATTCCCTACACCAACATATACATCACCAATTTATTTTACACAAGCACCAC-ACACGCG
* * * ** *
19452773 CAATCATTCCCTGCACCGACACAGCCATCACCGATTTATTTT
1 CAATCATTCCCTACACCAACATATACATCACCAATTTATTTT
19452815 TTACAAACAC
Statistics
Matches: 133, Mismatches: 32, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
62 3 0.02
63 129 0.97
64 1 0.01
ACGTcount: A:0.33, C:0.33, G:0.08, T:0.26
Consensus pattern (62 bp):
CAATCATTCCCTACACCAACATATACATCACCAATTTATTTTACACAAGCACCACACACGCG
Found at i:19454004 original size:20 final size:22
Alignment explanation
Indices: 19453971--19454018 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
19453961 CCCCTTGTAG
19453971 AAAAGAAGATAAGCAGTA-AAA
1 AAAAGAAGATAAGCAGTAGAAA
*
19453992 AAAATAAGA-AAGCAGTAGAAA
1 AAAAGAAGATAAGCAGTAGAAA
*
19454013 AGAAGA
1 AAAAGA
19454019 CAATAAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.67, C:0.04, G:0.21, T:0.08
Consensus pattern (22 bp):
AAAAGAAGATAAGCAGTAGAAA
Found at i:19454049 original size:22 final size:22
Alignment explanation
Indices: 19454010--19454059 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
19454000 AAAGCAGTAG
19454010 AAAAG-AAGACAATAAGAAGAA
1 AAAAGAAAGACAATAAGAAGAA
*
19454031 AGAAAGAAAGA-AATGAGAAGAA
1 A-AAAGAAAGACAATAAGAAGAA
19454053 AAAAGAA
1 AAAAGAA
19454060 GAAGAAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (22 bp):
AAAAGAAAGACAATAAGAAGAA
Found at i:19460038 original size:25 final size:23
Alignment explanation
Indices: 19459997--19460046 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
19459987 TTGGAAATTG
19459997 AAAGTGATTTGAATTGAATTAAA
1 AAAGTGATTTGAATTGAATTAAA
* *
19460020 AAAGTTATTGTGATATTGAATTGAA
1 AAAGTGATT-TGA-ATTGAATTAAA
19460045 AA
1 AA
19460047 TATGAGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 3 0.13
25 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (23 bp):
AAAGTGATTTGAATTGAATTAAA
Found at i:19460245 original size:43 final size:42
Alignment explanation
Indices: 19460203--19460285 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
19460193 TGAGACACTA
* *
19460203 TATGTGTCATAATATTACTTTGGA-TAATTCCGATGAGGCAC
1 TATGTGTCATAATATTACTTCGGATTAAATCCGATGAGGCAC
* * * *
19460244 TATGTGTCGTATTATTGCTTCGGATTAAATCCGATAAGGCAC
1 TATGTGTCATAATATTACTTCGGATTAAATCCGATGAGGCAC
19460286 AAGGTGCCGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 20 0.57
42 15 0.43
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (42 bp):
TATGTGTCATAATATTACTTCGGATTAAATCCGATGAGGCAC
Found at i:19464186 original size:55 final size:55
Alignment explanation
Indices: 19464121--19464233 Score: 181
Period size: 55 Copynumber: 2.1 Consensus size: 55
19464111 ATAATGTTCC
* * *
19464121 ACTTGTTTGGGATGATTAATGCCAAGAAAGTTTTGAGAAATTGAAGCAAATGTTG
1 ACTTGTTTGGGATAATAAATGCCAAGAAAATTTTGAGAAATTGAAGCAAATGTTG
* *
19464176 ACTTGTTTGGGATAATAAATGGCTAGAAAATTTTGAGAAATTGAAGCAAATGTTG
1 ACTTGTTTGGGATAATAAATGCCAAGAAAATTTTGAGAAATTGAAGCAAATGTTG
19464231 ACT
1 ACT
19464234 AAGGCACTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (55 bp):
ACTTGTTTGGGATAATAAATGCCAAGAAAATTTTGAGAAATTGAAGCAAATGTTG
Found at i:19465665 original size:27 final size:27
Alignment explanation
Indices: 19465582--19465665 Score: 127
Period size: 27 Copynumber: 3.1 Consensus size: 27
19465572 CCAAAACAGA
19465582 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCATAGCCAC
*
19465609 CAAGA-CAGAT-ATATGTGGCAGAGCCAC
1 C-AGATCAGATAAT-TGTGGCATAGCCAC
19465636 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCATAGCCAC
19465663 CAG
1 CAG
19465666 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
26 5 0.10
27 41 0.80
28 5 0.10
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATCAGATAATTGTGGCATAGCCAC
Found at i:19471958 original size:42 final size:41
Alignment explanation
Indices: 19471868--19471963 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 41
19471858 GACCTCAAGT
* * *
19471868 CGATGAGGCACTATATGTGTCGTAATATTACTTCGATAATTG
1 CGATGAGGCAC-ATATCTGTCGTAATATTACTTCGATAAATC
* * *
19471910 CTATGAGGCAC-TATCTGTCGTATTATTGCTTCAGATTAAATC
1 CGATGAGGCACATATCTGTCGTAATATTACTTC-GA-TAAATC
19471952 CGATGAGGCACA
1 CGATGAGGCACA
19471964 AGGTGCCGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
40 18 0.41
41 2 0.05
42 24 0.55
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (41 bp):
CGATGAGGCACATATCTGTCGTAATATTACTTCGATAAATC
Found at i:19480660 original size:24 final size:24
Alignment explanation
Indices: 19480615--19480660 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
19480605 ATGTGGAGGG
** *
19480615 AATCAAGGGGAGGATTGGGGAGAA
1 AATCAAGAAGAGGATTAGGGAGAA
*
19480639 AATCAAGAAGAGGATTATGGAG
1 AATCAAGAAGAGGATTAGGGAG
19480661 TGATTTTAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.41, C:0.04, G:0.39, T:0.15
Consensus pattern (24 bp):
AATCAAGAAGAGGATTAGGGAGAA
Found at i:19482034 original size:27 final size:27
Alignment explanation
Indices: 19482004--19482057 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
19481994 ATGACCAAAA
*
19482004 TACCCCTATAGGGTAAAGTGACT-ATTT
1 TACCCCTAGAGGGTAAA-TGACTGATTT
*
19482031 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
19482058 GTGGTATGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:19483850 original size:22 final size:21
Alignment explanation
Indices: 19483816--19483868 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
19483806 CATTAATATT
*
19483816 ATATAATAAATAATACGATAA
1 ATATAATAAATAATAAGATAA
* *
19483837 ATATAGTACAATAATAATATAA
1 ATATAATA-AATAATAAGATAA
*
19483859 ATACAATAAA
1 ATATAATAAA
19483869 AAATCTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (21 bp):
ATATAATAAATAATAAGATAA
Found at i:19517126 original size:7 final size:6
Alignment explanation
Indices: 19517103--19517173 Score: 56
Period size: 6 Copynumber: 11.3 Consensus size: 6
19517093 CAACCCAATC
* * *
19517103 TTTATT TTTATT TTTATT TATTATT TTTCTT TCTTTTAT TTTATT ATTATT
1 TTTATT TTTATT TTTATT T-TTATT TTTATT T-TTAT-T TTTATT TTTATT
19517154 ATTT-TAT TTTA-T TTTATT TT
1 -TTTAT-T TTTATT TTTATT TT
19517174 AGTTAAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
5 5 0.09
6 31 0.58
7 15 0.28
8 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:19517139 original size:23 final size:22
Alignment explanation
Indices: 19517104--19517167 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
19517094 AACCCAATCT
19517104 TTATT-TTTATTTTTATTTATTA
1 TTATTATTT-TTTTTATTTATTA
* * *
19517126 TTTTTCTTTCTTTTATTTTATTA
1 TTATTATTTTTTTTA-TTTATTA
19517149 TTATTATTTTATTTTATTT
1 TTATTATTTT-TTTTATTT
19517168 TATTTTAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 9 0.26
23 20 0.59
24 5 0.15
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (22 bp):
TTATTATTTTTTTTATTTATTA
Found at i:19517146 original size:5 final size:5
Alignment explanation
Indices: 19517103--19517174 Score: 60
Period size: 5 Copynumber: 13.8 Consensus size: 5
19517093 CAACCCAATC
*
19517103 TTTATT TTTATT TTTATT TATTAT TTT-T CTTTCT TTTAT TTTA- -TTAT
1 TTTA-T TTTA-T TTTA-T T-TTAT TTTAT -TTTAT TTTAT TTTAT TTTAT
19517150 TATTAT TTTAT TTTAT TTTAT TTTA
1 T-TTAT TTTAT TTTAT TTTAT TTTA
19517175 GTTAAATATT
Statistics
Matches: 59, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
3 3 0.05
4 1 0.02
5 31 0.53
6 21 0.36
7 3 0.05
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:19517152 original size:29 final size:30
Alignment explanation
Indices: 19517108--19517174 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
19517098 CAATCTTTAT
*
19517108 TTTTA-TTT-TTATTTATTATTTT-TCTTTC
1 TTTTATTTTATTATTTATTATTTTAT-TTTA
19517136 TTTTATTTTATTA-TTATTATTTTATTTTA
1 TTTTATTTTATTATTTATTATTTTATTTTA
19517165 TTTTATTTTA
1 TTTTATTTTA
19517175 GTTAAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 5 0.14
29 26 0.74
30 4 0.11
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTTATTTTATTATTTATTATTTTATTTTA
Found at i:19521067 original size:18 final size:20
Alignment explanation
Indices: 19521028--19521067 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
19521018 TAATATCATG
*
19521028 TAATACTATATCTTTTATTA
1 TAATACTATATCTTTAATTA
19521048 TAAT-CTATAT-TTTAATTA
1 TAATACTATATCTTTAATTA
19521066 TA
1 TA
19521068 GTAGTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 6 0.32
20 4 0.21
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATACTATATCTTTAATTA
Found at i:19523013 original size:15 final size:15
Alignment explanation
Indices: 19522982--19523028 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
19522972 ATATATAGAA
19522982 ATATA-ATAC-TAACC
1 ATATATATACATAA-C
19522996 ATATATATACATAAC
1 ATATATATACATAAC
19523011 ATATATA-ACAT-AC
1 ATATATATACATAAC
19523024 ATATA
1 ATATA
19523029 AAGTATATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.23
14 9 0.29
15 12 0.39
16 3 0.10
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (15 bp):
ATATATATACATAAC
Found at i:19523048 original size:19 final size:21
Alignment explanation
Indices: 19523012--19523054 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
19523002 ATACATAACA
19523012 TATATAACATACATAT-AAAG
1 TATATAACATACATATAAAAG
19523032 TATAT-ACATAACA-ATAAAAG
1 TATATAACAT-ACATATAAAAG
19523052 TAT
1 TAT
19523055 GATATTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
TATATAACATACATATAAAAG
Found at i:19523168 original size:24 final size:24
Alignment explanation
Indices: 19523141--19523195 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
19523131 ACCTAATATG
19523141 AATATTATTAATATAAA-AT-TTATT
1 AATATTATT-ATATAAATATATTA-T
*
19523165 AATAATATTATATAAATATATTAT
1 AATATTATTATATAAATATATTAT
19523189 AATATTA
1 AATATTA
19523196 AAAATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 17 0.63
25 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AATATTATTATATAAATATATTAT
Found at i:19523190 original size:21 final size:22
Alignment explanation
Indices: 19523136--19523202 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 22
19523126 TATATACCTA
* *
19523136 ATATGAATATTATTAATATAAAAT
1 ATATTAATAATATT-ATAT-AAAT
*
19523160 TTATTAATAATATTATATAAAT
1 ATATTAATAATATTATATAAAT
19523182 ATATT-ATAATATTA-A-AAAT
1 ATATTAATAATATTATATAAAT
19523201 AT
1 AT
19523203 GTACGTCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 1 0.03
21 9 0.23
22 8 0.21
23 4 0.10
24 11 0.28
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (22 bp):
ATATTAATAATATTATATAAAT
Found at i:19523354 original size:18 final size:19
Alignment explanation
Indices: 19523323--19523361 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19523313 AAATAATATG
19523323 AAAATGAACTTAAATCTGA
1 AAAATGAACTTAAATCTGA
* *
19523342 AAAATGGAC-TAAATTTGA
1 AAAATGAACTTAAATCTGA
19523360 AA
1 AA
19523362 CAAAAACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.26
Consensus pattern (19 bp):
AAAATGAACTTAAATCTGA
Found at i:19526708 original size:20 final size:20
Alignment explanation
Indices: 19526671--19526708 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19526661 TTCTGTTCGT
*
19526671 AAATGATGAAATTGGAGAAA
1 AAATGATGAAATTAGAGAAA
19526691 AAATGAT-AAATATAGAGA
1 AAATGATGAAAT-TAGAGA
19526709 TGGAACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (20 bp):
AAATGATGAAATTAGAGAAA
Found at i:19529131 original size:64 final size:65
Alignment explanation
Indices: 19529008--19529138 Score: 228
Period size: 64 Copynumber: 2.0 Consensus size: 65
19528998 TTATGTTTTA
* *
19529008 TTTATGATTAGTGCATTTATTATGTTTTCTTTTGGGTATATTCCCATTTGCTTAGCATGATTGTT
1 TTTATAATTAGTGCATTTATTATGTTTTCTTTTGGGTATATTCCCATTTGCTTAGCATGATTATT
*
19529073 TTTATAATTAGTGCGTTTATTATGTTTTC-TTTGGGTATATTCCCATTTGCTTAGCATGATTATT
1 TTTATAATTAGTGCATTTATTATGTTTTCTTTTGGGTATATTCCCATTTGCTTAGCATGATTATT
19529137 TT
1 TT
19529139 ATTATTCTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
64 36 0.57
65 27 0.43
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.54
Consensus pattern (65 bp):
TTTATAATTAGTGCATTTATTATGTTTTCTTTTGGGTATATTCCCATTTGCTTAGCATGATTATT
Found at i:19531002 original size:29 final size:29
Alignment explanation
Indices: 19530960--19531015 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
19530950 TTTGACGTAG
* *
19530960 ATTTTAAAAAAATTATTTAAAAGTTATAA
1 ATTTTAAAAAAATTATTAAAAAATTATAA
*
19530989 ATTTTTAAAAAATTATTAAAAAATTAT
1 ATTTTAAAAAAATTATTAAAAAATTAT
19531016 GAAAATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
ATTTTAAAAAAATTATTAAAAAATTATAA
Found at i:19531020 original size:10 final size:11
Alignment explanation
Indices: 19530987--19531020 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19530977 TAAAAGTTAT
*
19530987 AAATTTTTAAA
1 AAATTATTAAA
19530998 AAATTATTAAA
1 AAATTATTAAA
*
19531009 AAATTATGAAA
1 AAATTATTAAA
19531020 A
1 A
19531021 TTCTAGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:19534238 original size:18 final size:19
Alignment explanation
Indices: 19534215--19534253 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19534205 CTAAGAAAAT
19534215 ATAGAAAGAAAAAAGA-AA
1 ATAGAAAGAAAAAAGATAA
* *
19534233 ATAGAAATATAAAAGATAA
1 ATAGAAAGAAAAAAGATAA
19534252 AT
1 AT
19534254 TGTATTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (19 bp):
ATAGAAAGAAAAAAGATAA
Found at i:19534528 original size:16 final size:16
Alignment explanation
Indices: 19534488--19534528 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
19534478 TATTATAATC
19534488 TATATTATAATAATAG
1 TATATTATAATAATAG
*
19534504 T-TATATATAATAGTAG
1 TATAT-TATAATAATAG
19534520 TATATTATA
1 TATATTATA
19534529 TTATTGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (16 bp):
TATATTATAATAATAG
Found at i:19535654 original size:24 final size:25
Alignment explanation
Indices: 19535622--19535670 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
19535612 ATTATTCCAA
19535622 AAAAGATAAAAGTAAAATT-TTTTT
1 AAAAGATAAAAGTAAAATTCTTTTT
19535646 AAAAGATAAAAGTAAAATTCTTTTT
1 AAAAGATAAAAGTAAAATTCTTTTT
19535671 TTTACATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
AAAAGATAAAAGTAAAATTCTTTTT
Found at i:19538539 original size:24 final size:24
Alignment explanation
Indices: 19538495--19538546 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
19538485 ATGAATTCCC
*
19538495 ATCATGGAACATTTACCTAACCATT
1 ATCATGAAACATTTACCTAACC-TT
19538520 ATCATGAAACA-TTACCTAACCTT
1 ATCATGAAACATTTACCTAACCTT
19538543 ATCA
1 ATCA
19538547 ATTTGTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.23
24 10 0.38
25 10 0.38
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (24 bp):
ATCATGAAACATTTACCTAACCTT
Found at i:19541883 original size:32 final size:32
Alignment explanation
Indices: 19541841--19541905 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
19541831 AATGCTTACC
*
19541841 ATGCCTATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
19541873 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
19541905 A
1 A
19541906 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:19544167 original size:34 final size:34
Alignment explanation
Indices: 19544124--19544191 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
19544114 ATTGAGAAAG
19544124 AACTTTGAATATAAGTTGTGCTATTAGATTTGAA
1 AACTTTGAATATAAGTTGTGCTATTAGATTTGAA
*
19544158 AACTTTGAATATAAGTTGTGTTATTAGATTTGAA
1 AACTTTGAATATAAGTTGTGCTATTAGATTTGAA
19544192 GATAATAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (34 bp):
AACTTTGAATATAAGTTGTGCTATTAGATTTGAA
Found at i:19551063 original size:20 final size:20
Alignment explanation
Indices: 19551040--19551079 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19551030 TAAACAAGAA
19551040 GTAATTTTAAACTAAACTTT
1 GTAATTTTAAACTAAACTTT
19551060 GTAATTTTAAACTAAACTTT
1 GTAATTTTAAACTAAACTTT
19551080 CTTGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
GTAATTTTAAACTAAACTTT
Found at i:19552943 original size:21 final size:22
Alignment explanation
Indices: 19552917--19552958 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19552907 CACTATTTTT
19552917 ATTAAAA-ATTAATTTTAATCC
1 ATTAAAATATTAATTTTAATCC
*
19552938 ATTAAAATTTTAATTTTAATC
1 ATTAAAATATTAATTTTAATC
19552959 TCATATTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATATTAATTTTAATCC
Found at i:19553264 original size:69 final size:68
Alignment explanation
Indices: 19553122--19553273 Score: 171
Period size: 69 Copynumber: 2.2 Consensus size: 68
19553112 TTTTCATAAA
* * * *
19553122 AAAAATTAATTTTAATCCCTTATTAACTAGAGAATACTCACAGAGCTCACGTTTTTACTATTTTT
1 AAAAATTAATTTTAATCCCTCATTAACTAGAGAATACTCACAGAGCTCACGTTTTCACTAATTTC
19553187 ATT
66 ATT
* * * * * * *
19553190 GAAAATTTTATTTTAATCTCTCATTGACTAGAGAATACTCTCATAGTTCAC-TTCTTCACTAATT
1 -AAAAATTAATTTTAATCCCTCATTAACTAGAGAATACTCACAGAGCTCACGTT-TTCACTAATT
*
19553254 TCCTT
64 TCATT
19553259 AAAAATTAATTTTAA
1 AAAAATTAATTTTAA
19553274 CTAGAGAATA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
68 15 0.22
69 53 0.78
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (68 bp):
AAAAATTAATTTTAATCCCTCATTAACTAGAGAATACTCACAGAGCTCACGTTTTCACTAATTTC
ATT
Found at i:19562403 original size:46 final size:47
Alignment explanation
Indices: 19562333--19562661 Score: 342
Period size: 46 Copynumber: 6.8 Consensus size: 47
19562323 TTCGACATGA
* * * * *
19562333 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* * ** * **
19562379 TTCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
19562426 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
*
19562472 TGCCATGGTATCTTTCAACCATGGTCTTACAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-A-CAT--T-TT-CA--TGTC--A-C--GT
* * *
19562532 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* * *
19562578 TGCCATGGCATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
19562624 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC
19562662 TATCAGAGAG
Statistics
Matches: 244, Mismatches: 22, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
46 149 0.61
47 40 0.16
48 2 0.01
49 1 0.00
51 4 0.02
52 2 0.01
53 4 0.02
54 2 0.01
55 4 0.02
57 1 0.00
58 2 0.01
59 1 0.00
60 32 0.13
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
Found at i:19562495 original size:16 final size:15
Alignment explanation
Indices: 19562474--19562516 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
19562464 TGTCACGTTG
*
19562474 CCATGGTATCTTTCAA
1 CCATGGT-TCTTACAA
19562490 CCATGG-TCTTACAA
1 CCATGGTTCTTACAA
19562504 CCATGG-TCTTACA
1 CCATGGTTCTTACA
19562517 CGTTTCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 20 0.77
16 6 0.23
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (15 bp):
CCATGGTTCTTACAA
Found at i:19562504 original size:14 final size:14
Alignment explanation
Indices: 19562482--19562516 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
19562472 TGCCATGGTA
*
19562482 TCTTTCAACCATGG
1 TCTTACAACCATGG
19562496 TCTTACAACCATGG
1 TCTTACAACCATGG
19562510 TCTTACA
1 TCTTACA
19562517 CGTTTCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (14 bp):
TCTTACAACCATGG
Found at i:19562507 original size:60 final size:60
Alignment explanation
Indices: 19562436--19562562 Score: 218
Period size: 60 Copynumber: 2.1 Consensus size: 60
19562426 TGCCATGGTA
* *
19562436 TCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGG
1 TCTTACAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
* *
19562496 TCTTACAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
1 TCTTACAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
19562556 TCTTACA
1 TCTTACA
19562563 CGTTTCATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (60 bp):
TCTTACAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
Found at i:19564824 original size:11 final size:11
Alignment explanation
Indices: 19564808--19564859 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
19564798 TATACTAAAT
19564808 AAATAATAATA
1 AAATAATAATA
*
19564819 AAATAAT-ATT
1 AAATAATAATA
* *
19564829 AAATATCTCATA
1 AAATA-ATAATA
*
19564841 AAATATTAATA
1 AAATAATAATA
19564852 AAATAATA
1 AAATAATA
19564860 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Done.