Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold2
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1381
ACGTcount: A:0.24, C:0.23, G:0.38, T:0.15
Found at i:147 original size:87 final size:86
Alignment explanation
Indices: 50--822 Score: 563
Period size: 87 Copynumber: 8.5 Consensus size: 86
40 AGTCTCAGAG
50 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGT
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGT
115 CTCAGAGTCAGTGGGGCCGGTC
66 C-CAGAGTCAGTGGGGCCGGTC
* *
137 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGT
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGT
202 CGCAGAGTCAGTGGGGCCGGTC
66 C-CAGAGTCAGTGGGGCCGGTC
* *
224 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGT
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGT
289 CTCAGAGTCAGTGGGGCCGGTC
66 C-CAGAGTCAGTGGGGCCGGTC
* * ** *
311 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGT-CTCAGTGGGGCCAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC-CAGAAGGACCAG
* * * **
375 TACCGGAAGGACCAGT----CTCAGAG
65 T-CCAG-A-G-TCAGTGGGGC-CGGTC
** * *
398 TCAGTGGGGCCGGT-CTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGG
1 TCAGTGGGGCCGGTGC-CAGAAGGACCAGT--C-------TC------AGAGTCAGTGGGGCCGG
462 TGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
50 TGCCAGAAGGACCAGTC-CAGAGTCAGTGGGGCCGGTC
* * * ** *
500 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT-CTCAGTGGGGCCAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC-CAGAAGGACCAG
* * **
564 TACCAGAAGGACCAGT----CTCAGAG
65 T-CCAG-A-G-TCAGTGGGGC-CGGTC
* ** *
587 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGT-CTCAGTGGGGCCAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC-CAGAAGGACCAG
* * * **
651 TACCGGAAGGACCAGT----CTCAGAG
65 T-CCAG-A-G-TCAGTGGGGC-CGGTC
** * *
674 TCAGTGGGGCCGGT-CTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGG
1 TCAGTGGGGCCGGTGC-CAGAAGGACCAGT--C-------TC------AGAGTCAGTGGGGCCGG
738 TGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
50 TGCCAGAAGGACCAGTC-CAGAGTCAGTGGGGCCGGTC
776 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCC
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCC
823 AGTTTGCGAA
Statistics
Matches: 565, Mismatches: 63, Indels: 116
0.76 0.08 0.16
Matches are distributed among these distances:
86 6 0.01
87 408 0.72
88 4 0.01
89 4 0.01
90 8 0.01
93 2 0.00
96 2 0.00
99 8 0.01
100 4 0.01
101 4 0.01
102 109 0.19
103 6 0.01
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (86 bp):
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGT
CCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 1 -- 49
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 823 -- 1322
AGTTTGCGAAGTTTCCGGAGTGGAAATATCGCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTT
CACCTGTAGTAGACTCCGACGAAGGAACAGTCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCA
GTCACCGTAATACAGTCAGAGTCCGTGGGAACAGTGACGCTCTCAGAGACAGTGTCCGAAGGACC
AGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTGGGACCAGTAGGCTCAGAAGCGG
AGTCAGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTAGGACCAGTA
GGCTCAGAAGCGGAGTCCGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACC
AGTAGGTCCAGTAGGCTCAGATGCGGAGTCAGAAGGACCAGTAGGTCCAGTAGGCTCAGAAGCGG
AGTCGGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGG
Found at i:150 original size:36 final size:36
Alignment explanation
Indices: 14--135 Score: 226
Period size: 36 Copynumber: 3.4 Consensus size: 36
4 GGGGCCGGTC
* *
14 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
50 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
86 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
122 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
136 CTCAGTGGGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 84 1.00
ACGTcount: A:0.22, C:0.25, G:0.39, T:0.15
Consensus pattern (36 bp):
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
Left flanking sequence: Indices 1 -- 13
AGTGGGGCCGGTC
Right flanking sequence: Indices 136 -- 635
CTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAG
TCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGA
AGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAG
AGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCG
GTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACC
AGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAG
TGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGG
Found at i:162 original size:51 final size:51
Alignment explanation
Indices: 86--186 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
76 AGTCTCAGAG
* *
86 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
137 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
187 GCCAGAAGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.16
Consensus pattern (51 bp):
TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 1 -- 85
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 187 -- 686
GCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGA
AGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAG
AGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCA
GTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACC
AGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAG
TGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGG
Found at i:201 original size:51 final size:51
Alignment explanation
Indices: 101--201 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
91 GGGGCCGGTG
** *
101 CCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTA
1 CCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGAAGGACCAGTA
152 CCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC-CAGAAGGACCAGT
1 CCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT-CTCAGAAGGACCAGT
202 CGCAGAGTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.37, T:0.14
Consensus pattern (51 bp):
CCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGAAGGACCAGTA
Left flanking sequence: Indices 1 -- 100
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTG
Right flanking sequence: Indices 202 -- 701
CGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGG
GGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAA
GGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGA
GTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGG
TGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCA
GTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGT
GGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGG
AAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAG
Found at i:228 original size:51 final size:51
Alignment explanation
Indices: 173--273 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
163 AGTCTCAGAG
* *
173 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
*
224 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGT
274 GCCAGAAGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.20, C:0.25, G:0.41, T:0.15
Consensus pattern (51 bp):
TCAGTGGGGCCAGTACCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 1 -- 172
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 274 -- 773
GCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAG
TCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTG
GGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGA
AGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAG
AGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCG
GTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACC
AGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAG
TGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGG
Found at i:237 original size:36 final size:36
Alignment explanation
Indices: 137--222 Score: 145
Period size: 36 Copynumber: 2.4 Consensus size: 36
127 GGGGCCGGTC
* * *
137 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
173 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
209 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
223 CTCAGTGGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.22, C:0.24, G:0.40, T:0.14
Consensus pattern (36 bp):
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
Left flanking sequence: Indices 1 -- 136
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTC
Right flanking sequence: Indices 223 -- 722
CTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTG
GGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGT
GGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAG
AGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCG
GTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACC
AGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAG
TGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAG
Found at i:261 original size:138 final size:138
Alignment explanation
Indices: 86--822 Score: 1207
Period size: 138 Copynumber: 5.3 Consensus size: 138
76 AGTCTCAGAG
* *
86 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
151 ACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
66 ACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
216 GGCCGGTC
131 GGCCGGTC
** *
224 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC-CAGAAGGACCAG
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT-CTCAGTGGGGCCAG
* * ** *
288 T-CTCAG-A-G-TCAGTGGGGC-CGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGGT
65 TAC-CAGAAGGACCAGT----CTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGT
348 CAGTGGGGCCGGTC
125 CAGTGGGGCCGGTC
*
362 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
* * *
427 GCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGG
66 ACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
492 GGCCGGTC
131 GGCCGGTC
*
500 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
565 ACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
66 ACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
630 GGCCGGTC
131 GGCCGGTC
*
638 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
*
703 ACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
66 ACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
768 GGCCGGTC
131 GGCCGGTC
* *
776 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCC
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCC
823 AGTTTGCGAA
Statistics
Matches: 559, Mismatches: 28, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
135 4 0.01
136 1 0.00
137 4 0.01
138 541 0.97
139 4 0.01
140 1 0.00
141 4 0.01
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (138 bp):
TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
ACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
GGCCGGTC
Left flanking sequence: Indices 1 -- 85
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 823 -- 1322
AGTTTGCGAAGTTTCCGGAGTGGAAATATCGCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTT
CACCTGTAGTAGACTCCGACGAAGGAACAGTCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCA
GTCACCGTAATACAGTCAGAGTCCGTGGGAACAGTGACGCTCTCAGAGACAGTGTCCGAAGGACC
AGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTGGGACCAGTAGGCTCAGAAGCGG
AGTCAGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTAGGACCAGTA
GGCTCAGAAGCGGAGTCCGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACC
AGTAGGTCCAGTAGGCTCAGATGCGGAGTCAGAAGGACCAGTAGGTCCAGTAGGCTCAGAAGCGG
AGTCGGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGG
Found at i:288 original size:51 final size:51
Alignment explanation
Indices: 188--288 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
178 GGGGCCGGTG
** *
188 CCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTA
1 CCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGAAGGACCAGTA
*
239 CCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC-CAGAAGGACCAGT
1 CCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGT-CTCAGAAGGACCAGT
289 CTCAGAGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.38, T:0.13
Consensus pattern (51 bp):
CCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGAAGGACCAGTA
Left flanking sequence: Indices 1 -- 187
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTG
Right flanking sequence: Indices 289 -- 788
CTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTGG
GGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTG
GGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGA
GTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGG
TCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCA
GTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGT
GGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAG
AAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGG
Found at i:307 original size:36 final size:36
Alignment explanation
Indices: 224--309 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
214 GGGGCCGGTC
*
224 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCGGTACCAGAAGGACCAGTCTCAGAG
*
260 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCGGTACCAGAAGGACCAGTCTCAGAG
296 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
310 CTCAGTGGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.15
Consensus pattern (36 bp):
TCAGTGGGGCCGGTACCAGAAGGACCAGTCTCAGAG
Left flanking sequence: Indices 1 -- 223
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGG
ACCAGTCGCAGAGTCAGTGGGGCCGGTC
Right flanking sequence: Indices 310 -- 809
CTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAG
TACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCA
GTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGT
GGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAG
AAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCG
GTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCC
AGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAG
TGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAG
Found at i:316 original size:15 final size:15
Alignment explanation
Indices: 296--324 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
286 AGTCTCAGAG
296 TCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTC
311 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
325 GCCAGAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.24, G:0.48, T:0.21
Consensus pattern (15 bp):
TCAGTGGGGCCGGTC
Left flanking sequence: Indices 1 -- 295
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGG
ACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGT
CAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 325 -- 824
GCCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGA
AGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAG
AGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCA
GTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACC
AGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAG
TGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCAG
Found at i:453 original size:36 final size:36
Alignment explanation
Indices: 413--633 Score: 151
Period size: 36 Copynumber: 6.3 Consensus size: 36
403 GGGGCCGGTC
*
413 TCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
*
449 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
* ** * *
485 TCAGTGGGGCCGGT-CTCAGTGGGGCCAGTAC-CGGAAGG
1 TCAGTGGGGCCAGTGC-CAGAAGGACCAGT-CTCAG-A-G
* * * ** * *
523 ACCAGT----CTCAGAGTCAGTGGGGCC-G-GTC----
1 -TCAGTGGGGC-CAGTGCCAGAAGGACCAGTCTCAGAG
*
551 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
* *
587 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
623 TCAGTGGGGCC
1 TCAGTGGGGCC
634 GGTCTCAGTG
Statistics
Matches: 145, Mismatches: 22, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
27 4 0.03
30 10 0.07
31 2 0.01
32 2 0.01
34 1 0.01
35 3 0.02
36 116 0.80
37 2 0.01
38 1 0.01
39 4 0.03
ACGTcount: A:0.21, C:0.25, G:0.39, T:0.14
Consensus pattern (36 bp):
TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
Left flanking sequence: Indices 1 -- 412
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGG
ACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGT
CAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTG
CCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGT
CTCAGAGTCAGTGGGGCCGGTC
Right flanking sequence: Indices 634 -- 1133
GGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGC
CAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCA
GTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCAGTTTG
CGAAGTTTCCGGAGTGGAAATATCGCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTTCACCTG
TAGTAGACTCCGACGAAGGAACAGTCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCAGTCACC
GTAATACAGTCAGAGTCCGTGGGAACAGTGACGCTCTCAGAGACAGTGTCCGAAGGACCAGTAGG
ACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTGGGACCAGTAGGCTCAGAAGCGGAGTCAG
AAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGAC
Found at i:477 original size:51 final size:51
Alignment explanation
Indices: 260--462 Score: 343
Period size: 51 Copynumber: 4.0 Consensus size: 51
250 AGTCTCAGAG
*
260 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
* * *
311 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
* *
362 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
*
413 TCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
463 GCCAGAAGGA
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 144 1.00
ACGTcount: A:0.18, C:0.25, G:0.42, T:0.15
Consensus pattern (51 bp):
TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 1 -- 259
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGG
ACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 463 -- 962
GCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGA
AGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAG
AGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCG
GTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCAGTTTGCGAAGTTTCCGGAGTGGAAATATC
GCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTTCACCTGTAGTAGACTCCGACGAAGGAACAG
TCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCAGTCACCGTAA
Found at i:615 original size:51 final size:51
Alignment explanation
Indices: 449--600 Score: 277
Period size: 51 Copynumber: 3.0 Consensus size: 51
439 AGTCTCAGAG
* *
449 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
*
500 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
551 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
1 TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
601 GCCAGAAGGA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 97 1.00
ACGTcount: A:0.20, C:0.25, G:0.39, T:0.16
Consensus pattern (51 bp):
TCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 1 -- 448
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGC
CAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGG
ACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGT
CAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTG
CCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGT
CTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 601 -- 1100
GCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGA
AGGACCAGTCTCAGAGTCAGTGGGGCCAGTTTGCGAAGTTTCCGGAGTGGAAATATCGCCAGTGT
TCGAAGCAGAACCAGGCGTGGATGTTTCACCTGTAGTAGACTCCGACGAAGGAACAGTCACGGTC
ACAGTGGGAGTGGTGGTAGTAGTATCAGTCACCGTAATACAGTCAGAGTCCGTGGGAACAGTGAC
GCTCTCAGAGACAGTGTCCGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGAC
CAGTGGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTAG
Found at i:671 original size:30 final size:30
Alignment explanation
Indices: 635--722 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
625 AGTGGGGCCG
635 GTCTCAGTGGGGCCAGTACCGGAAGGACCA
1 GTCTCAGTGGGGCCAGTACCGGAAGGACCA
* * *
665 GTCTCA---GAGTCAGT---GG--GG-CCG
1 GTCTCAGTGGGGCCAGTACCGGAAGGACCA
686 GTCTCAGTGGGGCCAGTACCGGAAGGACCA
1 GTCTCAGTGGGGCCAGTACCGGAAGGACCA
716 GTCTCAG
1 GTCTCAG
723 AGTCAGTGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
21 8 0.19
22 2 0.05
24 8 0.19
27 8 0.19
29 2 0.05
30 15 0.35
ACGTcount: A:0.20, C:0.26, G:0.38, T:0.16
Consensus pattern (30 bp):
GTCTCAGTGGGGCCAGTACCGGAAGGACCA
Left flanking sequence: Indices 135 -- 634
TCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCA
GTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGT
GGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAG
AAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCA
GAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCC
GGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGAC
CAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCA
GTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCG
Right flanking sequence: Indices 723 -- 1222
AGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCG
GTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCAGTTTGCGAAGTTTCCGGAGTGGAAATATC
GCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTTCACCTGTAGTAGACTCCGACGAAGGAACAG
TCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCAGTCACCGTAATACAGTCAGAGTCCGTGGGA
ACAGTGACGCTCTCAGAGACAGTGTCCGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTC
GGAAGGACCAGTGGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTAGGACCAGTAGGCT
CAGAAGCGGAGTCGGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCCGAAGGACCAGTA
GGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTAGGTCCA
Found at i:753 original size:51 final size:51
Alignment explanation
Indices: 587--738 Score: 268
Period size: 51 Copynumber: 3.0 Consensus size: 51
577 AGTCTCAGAG
* * * *
587 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
638 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
689 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
1 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
739 GCCAGAAGGA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 97 1.00
ACGTcount: A:0.19, C:0.25, G:0.41, T:0.15
Consensus pattern (51 bp):
TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 87 -- 586
CAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTA
CCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGG
GCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAG
GACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGG
TCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
CTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTG
GGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 739 -- 1238
GCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAG
TCTCAGAGTCAGTGGGGCCAGTTTGCGAAGTTTCCGGAGTGGAAATATCGCCAGTGTTCGAAGCA
GAACCAGGCGTGGATGTTTCACCTGTAGTAGACTCCGACGAAGGAACAGTCACGGTCACAGTGGG
AGTGGTGGTAGTAGTATCAGTCACCGTAATACAGTCAGAGTCCGTGGGAACAGTGACGCTCTCAG
AGACAGTGTCCGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTGGGA
CCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGA
AGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCCGAAGGACCAGTAGGACCAGTAGGCTCAG
AAGCGGAGTCAGAAGGACCAGTAGGTCCAGTAGGCTCAGATGCGG
Found at i:772 original size:36 final size:36
Alignment explanation
Indices: 689--774 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
679 GGGGCCGGTC
* * *
689 TCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCGGTACCAGAAGGACCAGTCGCAGAG
*
725 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
1 TCAGTGGGGCCGGTACCAGAAGGACCAGTCGCAGAG
761 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
775 CTCAGTGGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.21, C:0.24, G:0.41, T:0.14
Consensus pattern (36 bp):
TCAGTGGGGCCGGTACCAGAAGGACCAGTCGCAGAG
Left flanking sequence: Indices 189 -- 688
CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTC
TCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGG
GCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAG
GACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAG
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
ACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTG
GGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTC
Right flanking sequence: Indices 775 -- 1274
CTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCAGTTTGCGAAGTTTCCG
GAGTGGAAATATCGCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTTCACCTGTAGTAGACTCC
GACGAAGGAACAGTCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCAGTCACCGTAATACAGTC
AGAGTCCGTGGGAACAGTGACGCTCTCAGAGACAGTGTCCGAAGGACCAGTAGGACCAGTAGGCT
CAGAAGCGGAGTCGGAAGGACCAGTGGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTA
GGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTC
CGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTAGGTCCAGTAGGCT
CAGATGCGGAGTCAGAAGGACCAGTAGGTCCAGTAGGCTCAGAAG
Found at i:780 original size:51 final size:51
Alignment explanation
Indices: 725--822 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
715 AGTCTCAGAG
725 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
*
776 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCC
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCC
823 AGTTTGCGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.18, C:0.26, G:0.42, T:0.14
Consensus pattern (51 bp):
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 225 -- 724
CAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTC
TCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGGGTCAGTGGG
GCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGG
GGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
TCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
CTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAG
TCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTG
GGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAG
Right flanking sequence: Indices 823 -- 1322
AGTTTGCGAAGTTTCCGGAGTGGAAATATCGCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTT
CACCTGTAGTAGACTCCGACGAAGGAACAGTCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCA
GTCACCGTAATACAGTCAGAGTCCGTGGGAACAGTGACGCTCTCAGAGACAGTGTCCGAAGGACC
AGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTGGGACCAGTAGGCTCAGAAGCGG
AGTCAGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGGAAGGACCAGTAGGACCAGTA
GGCTCAGAAGCGGAGTCCGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACC
AGTAGGTCCAGTAGGCTCAGATGCGGAGTCAGAAGGACCAGTAGGTCCAGTAGGCTCAGAAGCGG
AGTCGGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGG
Found at i:781 original size:15 final size:15
Alignment explanation
Indices: 761--789 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
751 AGTCGCAGAG
761 TCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTC
776 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
790 GCCAGAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.24, G:0.48, T:0.21
Consensus pattern (15 bp):
TCAGTGGGGCCGGTC
Left flanking sequence: Indices 261 -- 760
CAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTG
CCAGAAGGACCAGTCGCAGGGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGT
CTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGG
GGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAA
GGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGACCAGTCTCAGA
GTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAG
TACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCA
GTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
Right flanking sequence: Indices 790 -- 1289
GCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCAGTTTGCGAAGTTTCCGGAGTGGAAATATCGC
CAGTGTTCGAAGCAGAACCAGGCGTGGATGTTTCACCTGTAGTAGACTCCGACGAAGGAACAGTC
ACGGTCACAGTGGGAGTGGTGGTAGTAGTATCAGTCACCGTAATACAGTCAGAGTCCGTGGGAAC
AGTGACGCTCTCAGAGACAGTGTCCGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCGG
AAGGACCAGTGGGACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTAGGACCAGTAGGCTCA
GAAGCGGAGTCGGAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCCGAAGGACCAGTAGG
ACCAGTAGGCTCAGAAGCGGAGTCAGAAGGACCAGTAGGTCCAGTAGGCTCAGATGCGGAGTCAG
AAGGACCAGTAGGTCCAGTAGGCTCAGAAGCGGAGTCGGAAGGAC
Found at i:1037 original size:39 final size:39
Alignment explanation
Indices: 1010--1381 Score: 663
Period size: 39 Copynumber: 9.5 Consensus size: 39
1000 GACAGTGTCC
*
1010 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCG
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
*
1049 GAAGGACCAGTGGGACCAGTAGGCTCAGAAGCGGAGTCA
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
*
1088 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCG
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
*
1127 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCC
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
1166 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
* *
1205 GAAGGACCAGTAGGTCCAGTAGGCTCAGATGCGGAGTCA
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
* *
1244 GAAGGACCAGTAGGTCCAGTAGGCTCAGAAGCGGAGTCG
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
*
1283 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCG
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
1322 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
1 GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
1361 GAAGGACCAGTAGGACCAGTA
1 GAAGGACCAGTAGGACCAGTA
Statistics
Matches: 321, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 321 1.00
ACGTcount: A:0.31, C:0.21, G:0.37, T:0.11
Consensus pattern (39 bp):
GAAGGACCAGTAGGACCAGTAGGCTCAGAAGCGGAGTCA
Left flanking sequence: Indices 510 -- 1009
CAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCAGAAGGA
CCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTC
AGTGGGGCCAGTACCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTAC
CGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGG
CCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGGGGCCAGTTTGCGAAGT
TTCCGGAGTGGAAATATCGCCAGTGTTCGAAGCAGAACCAGGCGTGGATGTTTCACCTGTAGTAG
ACTCCGACGAAGGAACAGTCACGGTCACAGTGGGAGTGGTGGTAGTAGTATCAGTCACCGTAATA
CAGTCAGAGTCCGTGGGAACAGTGACGCTCTCAGAGACAGTGTCC
Right flanking sequence: None
Done.