Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 21 of 29
Found at i:3206163 original size:152 final size:150
Alignment explanation
Indices: 3205901--3206182 Score: 415
Period size: 152 Copynumber: 1.9 Consensus size: 150
3205891 AGGAAAAGGC
* * *
3205901 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTC
1 GTCCAGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGACGTCCTACTC
* * *
3205966 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGAGGACT
66 TTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
3206031 AAAGGGTGAAAGGAGAGAGT
131 AAAGGGTGAAAGGAGAGAGT
* *
3206051 GTCCAGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGACTTTAAAGAGAAAGCGTCTT
1 GTCCAGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAA-AG--A-CGTCCT
* **
3206115 ACTTTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
62 ACTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
3206179 GACT
127 GACT
3206183 GAAAAGTGCC
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
149 28 0.24
150 22 0.19
152 50 0.43
153 17 0.15
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (150 bp):
GTCCAGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGACGTCCTACTC
TTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
AAAGGGTGAAAGGAGAGAGT
Found at i:3206204 original size:207 final size:208
Alignment explanation
Indices: 3205840--3206879 Score: 887
Period size: 209 Copynumber: 4.9 Consensus size: 208
3205830 TTTGAAAGGA
*
3205840 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-GAAAAGGCGT
1 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGAG-AAA-GCGT
* * * *
3205903 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTT
62 CCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
3205968 TGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGAGGACTA
126 TGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
* ** * *
3206032 AAGGGTGAAAGGAGAGAGT
190 AAAGGCAAAAAGAGAGAGC
* * *
3206051 GTCCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGACTTTAAAGAGAAAGCGTCTTA
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAAGCGTCCTA
*
3206116 CTTTTTGAGGACTG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
66 CTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
*
3206180 ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAAAAGGC
131 ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGC
3206245 AAAAAGAGAGAGC
196 AAAAAGAGAGAGC
*
3206258 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAA-AG---GAGTCCTA
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAAGCGTCCTA
*
3206319 CTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGTGTCCTGCTCT
66 CTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTT---A--A-AAGGCGTCCTGCTCT
*
3206384 TTGAGGACTG-AATGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
125 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-
** * *
3206448 AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
189 AAAAG-G-CA--AA-------AAG---AGAGA-GC
* ** * *
3206483 GCCCTGCTCTTTGAGGAC-AAAAAG-GCGA--AA--------GG------AGAG--AGCGTCCTG
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAAGCGTCCTA
* * * * * *
3206528 CTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGACTTTAAAAAGAGAAAGCATCCTACTT
66 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTT--AAA-AG---GCGTCCTGCTC
* * *
3206592 TTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACT
124 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
* ** * * *
3206656 GGAAAGTGCCACCAACTTGTGTGGGC
189 -AAAAG-G-CA--AA-AAGAGAGAGC
* *
3206682 TTTGAATGGCATCTTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAA-AG
1 ---G--T--C--C-TGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAGAG
* * *
3206745 ---GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTT-TGTGGGCTTTAAGAGGCGTCC
55 AAAGCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAA-CTTATGTGGGCTTTAAAAGGCGTCC
*
3206806 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCTGCTCTTTG
119 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
3206870 AGGACTAAAA
183 AGGACTAAAA
3206880 TGTGCCACCA
Statistics
Matches: 698, Mismatches: 65, Indels: 124
0.79 0.07 0.14
Matches are distributed among these distances:
199 2 0.00
200 2 0.00
202 1 0.00
203 20 0.03
204 27 0.04
205 1 0.00
206 11 0.02
207 163 0.23
208 7 0.01
209 207 0.30
210 42 0.06
211 46 0.07
212 5 0.01
213 4 0.01
214 2 0.00
219 21 0.03
220 47 0.07
221 7 0.01
222 2 0.00
223 5 0.01
224 11 0.02
225 59 0.08
226 5 0.01
227 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (208 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAAGCGTCCTA
CTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGC
AAAAAGAGAGAGC
Found at i:3206206 original size:55 final size:55
Alignment explanation
Indices: 3206051--3206236 Score: 232
Period size: 55 Copynumber: 3.3 Consensus size: 55
3206041 AGGAGAGAGT
* * *
3206051 GTCCAGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGACTTTAAAGAGAAAGC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAA-AG---GC
* * * * *
3206110 GTCTTACTTTTTGAGGACTG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
3206164 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
3206219 GTCCTGCTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
3206237 AAAAAGGCAA
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
54 19 0.17
55 49 0.44
57 2 0.02
58 26 0.23
59 15 0.14
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:3206308 original size:149 final size:148
Alignment explanation
Indices: 3206099--3206366 Score: 421
Period size: 149 Copynumber: 1.8 Consensus size: 148
3206089 TGTGGACTTT
* * *
3206099 AAAGAGAAAGCGTCTTACTTTTTGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGC
1 AAAGAGAAAGCGTCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGA
* * *
3206164 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
66 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCT
3206229 TTGAGGACAAAAAGGCAA
131 TTGAGGACAAAAAGGCAA
* * *
3206247 AAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAAGAGAAAGCGTCCTACTCTTTGAGGACT--GAAGGTGCCACCAACTTATGTGGGCTTTAAAAG
*
3206311 GAGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGG
64 GAGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGG
3206367 AGAAGGTGTC
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
148 26 0.24
149 79 0.73
150 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (148 bp):
AAAGAGAAAGCGTCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGA
GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACAAAAAGGCAA
Found at i:3206323 original size:55 final size:55
Alignment explanation
Indices: 3206258--3206500 Score: 319
Period size: 55 Copynumber: 4.3 Consensus size: 55
3206248 AAGAGAGAGC
*
3206258 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
3206313 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G-G-A
* * *
3206371 GGTGTCCTGCTCTTTGAGGACTG-AATGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 ---GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
3206428 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
3206483 GCCCTGCTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
3206501 AAAAAGGCGA
Statistics
Matches: 170, Mismatches: 10, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
54 23 0.14
55 95 0.56
56 1 0.01
57 1 0.01
58 2 0.01
59 1 0.01
60 28 0.16
61 19 0.11
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:3206410 original size:115 final size:115
Alignment explanation
Indices: 3206258--3206481 Score: 369
Period size: 115 Copynumber: 1.9 Consensus size: 115
3206248 AAGAGAGAGC
3206258 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACTCT
1 GTCCTGCTCTTTGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACTCT
*
3206323 TTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGT
65 TTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGT
* * *
3206374 GTCCTGCTCTTTGAGGACT-GAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACTCT
* *
3206438 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
65 TTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGG
3206482 CGCCCTGCTC
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
114 3 0.03
115 79 0.78
116 19 0.19
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (115 bp):
GTCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACTCTT
TGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGT
Found at i:3206466 original size:264 final size:264
Alignment explanation
Indices: 3205726--3206999 Score: 1223
Period size: 264 Copynumber: 4.7 Consensus size: 264
3205716 TGAAAGGCGA
* * *
3205726 AGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAA-GACGTCC
1 AGGCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-GTCC
* * * *
3205790 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTCGTGT-GGCTTT---GAAAGGAGTCCTGCTCTT
64 TACTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCTT
3205851 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAG
128 TGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGAG
*
3205916 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTTTGAGGACTGGAAA
186 GACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC--GAAA
* * * * *
3205981 ATGCCACCAACTTGTGTGGGCTTTGAA
248 AAGGCA-CAA------TAGG---AGAG
* * ** * * *
3206008 AGGCGTCCTGCTTTTTGAGGACTA--AAGGGTGA--AA-----G-GAG-----AGA-GTGTCC-A
1 AGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTA
* * * * * *
3206056 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGACTTTAAAGAGAAAGCGTCTTACTTTT
66 -CTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAGA-AAGGCGTCCTGCTCTT
* *
3206121 TGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAA
128 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
*
3206186 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC-AAAAAGGCA-AA-
193 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACGAAAAAGGCACAAT
*
3206248 AAGAGAG
258 AGGAGAG
3206255 A-GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTA
1 AGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTA
* *
3206319 CTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGTGTCCTGCTCT
66 CTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAA-GA-AAGGCGTCCTGCTCT
*
3206384 TTGAGGACTGAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGA
127 TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGA
* * *
3206449 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGCCCTGCTCTTTGAGGAC-AAAAAGGC-GAA
192 AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACGAAAAAGGCACAA
3206512 -AGGAGAG
257 TAGGAGAG
*
3206519 A-GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGACTTTAAAAAGAGAAAGC
1 AGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-G--AG-
* *
3206583 ATCCTACTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--A-AAAGGCGTCCTGCT
61 -TCCTACTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCT
* * * * *
3206645 TTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAATGGCATCTTGCTCTTTGAGGAC
125 CTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* * *
3206710 TGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG-GAAGGTG
189 TGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC-GAAAAAG-G
* *
3206774 CCACCAACCTTTGTGGGCTTTAAG
252 -CA-CAA---TAG-GAG-----AG
* * * *
3206798 AGGCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCT
1 AGGCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
* *
3206862 GCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAGGCGTCCTGCT
65 ACTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAA--G-AAAGGCGTCCTGCT
* *
3206927 CTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
125 CTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTT
3206992 GAGGACTG
183 GAGGACTG
3207000 GAAGGGCTAA
Statistics
Matches: 846, Mismatches: 79, Indels: 128
0.80 0.08 0.12
Matches are distributed among these distances:
246 21 0.02
247 3 0.00
248 5 0.01
250 3 0.00
255 1 0.00
256 2 0.00
257 2 0.00
259 7 0.01
261 5 0.01
262 92 0.11
263 51 0.06
264 294 0.35
265 46 0.05
266 11 0.01
267 1 0.00
268 2 0.00
269 53 0.06
270 40 0.05
271 3 0.00
272 1 0.00
273 1 0.00
274 20 0.02
275 24 0.03
276 1 0.00
277 2 0.00
278 2 0.00
279 13 0.02
280 45 0.05
281 2 0.00
282 69 0.08
287 1 0.00
288 23 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (264 bp):
AGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTA
CTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCTTTGA
GGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAG
TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACGAAAAAGGCACAATAGG
AGAG
Found at i:3206636 original size:154 final size:148
Alignment explanation
Indices: 3206374--3206819 Score: 396
Period size: 154 Copynumber: 2.9 Consensus size: 148
3206364 AGGAGAAGGT
* * * *
3206374 GTCCTGCTCTTTGAGGACTGAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 GTCCTGCTCTTTGAGGACTGAATGTGCCACCAACTTGTGTGGACTTTGAAAAGCATCCTACTCTT
*
3206439 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGCCCTGCTCTTTGAGGACAAA
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGCCCTGCTCTTTGAGGACAAA
3206504 AAGGCGAAAGGAGAGAGC
131 AAGGCGAAAGGAGAGAGC
3206522 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGACTTTAAAAAGAGAAAGCATC
1 GTCCTGCTCTTTGAGGACT--GAATGTGCCACCAACTTGTGTGGACTTT-----GA-AAAGCATC
* * * *
3206586 CTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTG
58 CTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGCCCTGCTCTTTG
** * * *
3206650 AGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAATGGC
123 AGGAC-AAAAAG-GCGA--AA-----G-GAG---AG-A--GC
* * ** * * *
3206692 ATCTTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTC
1 GTCCTGCTCTTTGAGGACTG-AATGTGCCACCAACTTGTGTGGACTTTGAAAA-GCATCCTACTC
* * * *
3206756 TTTGAGGACTGGAAGGTGCCACCAACCTT-TGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGAC
64 TTTGAGGACTGAAAAGTGCCACCAA-CTTGTGTGGGCTTTAAAAGGCGCCCTGCTCTTTGAGGAC
3206820 TGGAAAATGC
Statistics
Matches: 246, Mismatches: 23, Indels: 41
0.79 0.07 0.13
Matches are distributed among these distances:
148 19 0.08
149 23 0.09
150 3 0.01
154 50 0.20
155 25 0.10
156 3 0.01
158 2 0.01
163 4 0.02
164 22 0.09
165 46 0.19
166 3 0.01
167 1 0.00
168 2 0.01
169 2 0.01
170 41 0.17
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (148 bp):
GTCCTGCTCTTTGAGGACTGAATGTGCCACCAACTTGTGTGGACTTTGAAAAGCATCCTACTCTT
TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGCCCTGCTCTTTGAGGACAAA
AAGGCGAAAGGAGAGAGC
Found at i:3206684 original size:55 final size:55
Alignment explanation
Indices: 3206520--3207002 Score: 537
Period size: 55 Copynumber: 8.5 Consensus size: 55
3206510 AAAGGAGAGA
*
3206520 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGACTTTAAAAAGAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG
* * * *
3206578 AAAGCATCCTACTTTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 ---GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
3206635 GCGTCCTGCTTTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAATG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
3206690 GCATCTTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
3206745 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTT-TGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAA-CTTGTGTGGGCTTTAAAAG
* * *
3206800 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
3206855 GCGTCCTGCTCTTTGAGGACT-AAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-------AAAAG
*
3206917 GCGTCCTGCTCTTTGAGGACT--AAAGGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA--GTGCCACCAACTTGTGTGGGCTTT------AAAAG
3206978 GCGTCCTGCTCTTTGAGGACTGGAA
1 GCGTCCTGCTCTTTGAGGACTGGAA
3207003 GGGCTAAAAG
Statistics
Matches: 374, Mismatches: 33, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
54 25 0.07
55 215 0.57
56 3 0.01
57 2 0.01
58 3 0.01
59 1 0.00
60 24 0.06
61 52 0.14
62 47 0.13
63 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:3206874 original size:165 final size:164
Alignment explanation
Indices: 3206514--3207002 Score: 615
Period size: 165 Copynumber: 2.8 Consensus size: 164
3206504 AAGGCGAAAG
* *
3206514 GAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGACTTTAAAAAGAGA
1 GAGAG-GCGTCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTT-AAAA-AG-
* * * *
3206579 AAGCATCCTACTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
61 --GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGC
* *
3206644 TTTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
124 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
3206685 GA-ATGGCATCTTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 GAGA-GGCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCG
3206748 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACCTT-TGTGGGCTTTAAGAGGCGTCCTGCTCT
64 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAA-CTTGTGTGGGCTTTAAGAGGCGTCCTGCTCT
3206812 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
127 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
3206850 GAGAGGCGTCCTGCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGGAAA
1 GAGAGGCGTCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTT---A---AAA
* *
3206915 AGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGC
59 AGGCGTCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTT--AA-G---AGGC
3206980 GTCCTGCTCTTTGAGGACTGGAA
117 GTCCTGCTCTTTGAGGACTGGAA
3207003 GGGCTAAAAG
Statistics
Matches: 281, Mismatches: 16, Indels: 35
0.85 0.05 0.11
Matches are distributed among these distances:
164 22 0.08
165 121 0.43
166 4 0.01
167 2 0.01
168 3 0.01
170 44 0.16
171 9 0.03
172 46 0.16
174 2 0.01
175 1 0.00
178 27 0.10
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (164 bp):
GAGAGGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTC
CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGA
GGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:3213329 original size:13 final size:13
Alignment explanation
Indices: 3213311--3213335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3213301 CATAAAGTGT
3213311 TGTATCGATACAA
1 TGTATCGATACAA
3213324 TGTATCGATACA
1 TGTATCGATACA
3213336 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3213333 original size:33 final size:33
Alignment explanation
Indices: 3213291--3213357 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3213281 GTCAACGATT
3213291 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
3213324 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3213357 T
1 T
3213358 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3213416 original size:13 final size:13
Alignment explanation
Indices: 3213398--3213422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3213388 ATCACTTAAA
3213398 TGTATCGATACAT
1 TGTATCGATACAT
3213411 TGTATCGATACA
1 TGTATCGATACA
3213423 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3213487 original size:52 final size:52
Alignment explanation
Indices: 3213431--3213559 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3213421 CACTGATCTT
* *
3213431 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
3213483 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3213535 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3213560 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3216935 original size:79 final size:78
Alignment explanation
Indices: 3216796--3217055 Score: 380
Period size: 79 Copynumber: 3.3 Consensus size: 78
3216786 TAGAGATAAC
* * * *
3216796 AACGGGGCTAGAGTATCCCTGATTATGAAAAATTAA-AGTTTTAGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATA-TTTTAGAAATAAAACCGGGGTTGGAG
3216860 TATCCCTTCGGAAAT
65 TATCCC-TCGGAAAT
*
3216875 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGT
*
3216940 ATCCC-CGCAGAAAC
66 ATCCCTCG--GAAAT
* *
3216954 AACGGGGTTGGAGTATCCCCGATTACGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGT
3217019 ATTCCCTCGGAAAT
66 A-TCCCTCGGAAAT
*
3217033 AACGGGGTTGGAGCATCCCCGAT
1 AACGGGGTTGGAGTATCCCCGAT
3217056 GATTAACGGG
Statistics
Matches: 165, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
77 2 0.01
79 156 0.95
80 5 0.03
81 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGT
ATCCCTCGGAAAT
Found at i:3217038 original size:28 final size:27
Alignment explanation
Indices: 3217007--3217081 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
3216997 GAAATAAAAC
3217007 CGGGGTTGGAGTATTCCCTCG-GAAATAA
1 CGGGGTTGGAGTATTCCC-CGAG-AATAA
* *
3217035 CGGGGTTGGAGCA-TCCCCGATGATTAA
1 CGGGGTTGGAGTATTCCCCGA-GAATAA
3217062 CGGGGTTGGAGTA-TCCCCGA
1 CGGGGTTGGAGTATTCCCCGA
3217082 TTGTGAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 27 0.64
28 13 0.31
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATTCCCCGAGAATAA
Found at i:3218534 original size:35 final size:35
Alignment explanation
Indices: 3218495--3218769 Score: 532
Period size: 35 Copynumber: 7.9 Consensus size: 35
3218485 TTTCATTTTT
*
3218495 ATGCCCATCATTCCATGCCTTCATTTTTATATTTC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
3218530 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
3218565 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
3218600 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
3218635 ATGCCCATCATTCCATGCCTTCACTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
3218670 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
3218705 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
3218740 ATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
3218770 TATTATTTTT
Statistics
Matches: 237, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 237 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:3218670 original size:21 final size:20
Alignment explanation
Indices: 3218504--3218744 Score: 104
Period size: 21 Copynumber: 13.5 Consensus size: 20
3218494 TATGCCCATC
3218504 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
* *
3218525 ATTTCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3218539 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3218560 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3218574 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3218595 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3218609 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3218630 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3218644 ATTCCATGCCTTCACTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3218665 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3218679 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
*
3218700 ATTCCATGCC--CA---T-C
1 ATTCCATGCCTTCATTTTAT
3218714 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCA-TTTTAT
3218735 ATTCCATGCC
1 ATTCCATGCC
3218745 CATCATTCCA
Statistics
Matches: 164, Mismatches: 14, Indels: 84
0.63 0.05 0.32
Matches are distributed among these distances:
14 59 0.36
15 6 0.04
16 12 0.07
19 12 0.07
20 6 0.04
21 69 0.42
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (20 bp):
ATTCCATGCCTTCATTTTAT
Found at i:3222551 original size:29 final size:29
Alignment explanation
Indices: 3222519--3222658 Score: 144
Period size: 29 Copynumber: 4.9 Consensus size: 29
3222509 ACTAAGTCAC
*
3222519 TAAACTTTTCAAAATTACGCTTTGACCCT
1 TAAACTTTTCAAAATTACACTTTGACCCT
* * *
3222548 TAAACTTTTCGAGATTACATTTTGACCC-
1 TAAACTTTTCAAAATTACACTTTGACCCT
* *
3222576 TATACTTTTCAAAATTGA-GCTTTG--CCT
1 TAAACTTTTCAAAATT-ACACTTTGACCCT
* *
3222603 TAAAATTTTTCAAAATTACACTTTGAGCCT
1 T-AAACTTTTCAAAATTACACTTTGACCCT
* *
3222633 TAAAATTTTCAAAATTACATTTTGAC
1 TAAACTTTTCAAAATTACACTTTGAC
3222659 TCCAAAATGA
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.02
27 2 0.02
28 35 0.39
29 47 0.52
30 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.41
Consensus pattern (29 bp):
TAAACTTTTCAAAATTACACTTTGACCCT
Found at i:3222642 original size:57 final size:56
Alignment explanation
Indices: 3222518--3222650 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 56
3222508 TACTAAGTCA
* * *
3222518 CTAAACTTTTCAAAATTACGCTTTGACCCTTAAACTTTTCGAGATTACATTTTGACC
1 CTAAACTTTTCAAAATTACGCTTTGA-CCTTAAACTTTTCAAAATTACACTTTGACC
* *
3222575 CTATACTTTTCAAAATTGA-GCTTTG-CCTTAAAATTTTTCAAAATTACACTTTGAGCC
1 CTAAACTTTTCAAAATT-ACGCTTTGACCTT-AAACTTTTCAAAATTACACTTTGA-CC
* *
3222632 TTAAAATTTTCAAAATTAC
1 CTAAACTTTTCAAAATTAC
3222651 ATTTTGACTC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
55 4 0.06
56 21 0.33
57 38 0.59
58 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.40
Consensus pattern (56 bp):
CTAAACTTTTCAAAATTACGCTTTGACCTTAAACTTTTCAAAATTACACTTTGACC
Found at i:3228193 original size:17 final size:16
Alignment explanation
Indices: 3228171--3228203 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
3228161 GATATGTTTT
3228171 GACTCAATATTGATTTC
1 GACTCAATATT-ATTTC
3228188 GACTCAATATTATTTC
1 GACTCAATATTATTTC
3228204 AATATGGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (16 bp):
GACTCAATATTATTTC
Found at i:3231265 original size:24 final size:23
Alignment explanation
Indices: 3231209--3231267 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
3231199 TTTTTTTACT
* *
3231209 TTTTATTTTTTTGTATTTTTTTG
1 TTTTATTTTTTTGTATTTTATTA
*
3231232 TTTCTTTTTTTTTGTATTTTATTA
1 TTT-TATTTTTTTGTATTTTATTA
3231256 TTATTATTTTTT
1 TT-TTATTTTTT
3231268 AAAAAAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 3 0.10
24 26 0.87
25 1 0.03
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (23 bp):
TTTTATTTTTTTGTATTTTATTA
Found at i:3231621 original size:45 final size:46
Alignment explanation
Indices: 3231504--3231625 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 46
3231494 AGATAAGAGG
* ** * *
3231504 AGTGCCAATGTGCCAATTCAAGGCTAGCGACATTGGGCTAAGGGAAA
1 AGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTAA-GGAAA
* * *
3231551 AGTGGACCAATTTGTTGATTCAAGGCCAGCAACATTGGGCTAA-TAAA
1 AGT-G-CCAATATGCTGATTCAAGGCCAGCAACATTGGGCTAAGGAAA
*
3231598 GGTGCCAATATGCTGATTCAAGGCCAGC
1 AGTGCCAATATGCTGATTCAAGGCCAGC
3231626 GATATCAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
45 22 0.35
46 1 0.02
47 8 0.13
48 1 0.02
49 31 0.49
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTAAGGAAA
Found at i:3231925 original size:148 final size:144
Alignment explanation
Indices: 3231705--3232828 Score: 882
Period size: 148 Copynumber: 7.6 Consensus size: 144
3231695 AAAAAATGTA
* * *
3231705 CCACTA-ACTTGTGTAGGCTTTGAAAAGAGTTGCCACGGACTTGTAGGG-TTTGAAAAGAGTTTC
1 CCACTAGACTTGTG--GGCTTTGAAAAGAGTTGCCACTGACTTGT-GGGCTTTG-AAAG-GGTGC
* * *
3231768 CACCGACTTGTGTGGGTTTTGAAAGGGTGCCACCGACTGGTGTGGACTTTG-AAAGGGTGCCA-T
61 CACCGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACT--TGTGGGCTTTGAAAAGGGTGCCACT
*
3231831 CGACTTGTAGGCTTTGAAAGGGTG
122 -GACTTGTGGGCTTTGAAAGGGTG
*
3231855 CTACTAG-CTTGTAGGG-TTTGAAAAGAGTTGCCA-TCGACTTGTGTAGGCTTTGAAAGGGTGCC
1 CCACTAGACTTGT-GGGCTTTGAAAAGAGTTGCCACT-GACTTGTG--GGCTTTGAAAGGGTGCC
* * * * * *
3231917 ACCGACTTGTGAGCTTTGAAAAAAAGGTGACACTAACTTGAGGGCTTTGAAAAGTGTGCCACTGA
62 ACCGACTTGTGGGCTTTG---AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGA
*
3231982 CTTATGGGCTTTGGAAA-GGTG
124 CTTGTGGGCTTT-GAAAGGGTG
* * * * *
3232003 CCAC-CGATTTGTGTGGGCTTTG-AAAGGGTATGCCACTAACTTATGGGCTTTGAAAGGGTGCCA
1 CCACTAGA-CT-TGTGGGCTTTGAAAAGAGT-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
** * * * * * *
3232066 CTAACTTGTAGGCTTTGGAAGGGTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGTCACCT-A
63 CCGACTTGTGGGCTTTGAAAGGGTGCCACTGA-CT-TGTGGGCTTTGAAAAG-GGTGCCA-CTGA
* *
3232130 CTTGTGTGAGCTTTGAAAAGATG
124 CTTGTG-G-GCTTTGAAAGGGTG
* * ** *
3232153 CCACCA-ACTTGTGGGCTTTG-AAAGGGTATGCCACTGACTTGTGGATTTTGAAA-GGTGCCACT
1 CCACTAGACTTGTGGGCTTTGAAAAGAGT-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACC
* * * *
3232215 AACTTGTGGGCTTTTAAA-AGTACCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTG
65 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTG
*
3232279 GGCTTTGAAAAAAAGGTG
130 GGCTTTG---AAAGGGTG
** * * *
3232297 CCACTA-ACTTGTGACCTTTGAAAAGCG-TGCCACTAACTTATGGGCTTTGGAAA-GGTGCCACC
1 CCACTAGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTT-GAAAGGGTGCCACC
* * * *
3232359 GATTTGTGTGAGCTTTGAAAGGGTATGCCACTAACTTATGGGCTTTG-AAAGGGTGCCACTAACT
65 GACTTGTG-G-GCTTTGAAAGGG--TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
3232423 TGTGGGCTTT-AGAAGGGTG
126 TGTGGGCTTTGA-AAGGGTG
* * *
3232442 CCAC-CGATTTGTGTGGGCTTTGAAAAGAGTTGCCA-TCGACTTGTGTGAGCTTTGAAAAGGTGC
1 CCACTAGA-CT-TGTGGGCTTTGAAAAGAGTTGCCACT-GACTTGTG-G-GCTTTGAAAGGGTGC
* *
3232505 CACCGACTTGTAGGCTTTGAAAGGGTATGCCACTGACTTGTGGGTTTTG-AAA-GGTGCCACTGA
61 CACCGACTTGTGGGCTTTGAAAGGG--TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGA
3232568 CTTGTGGGCTTTGAAAAGGGTG
124 CTTGTGGGCTTTG-AAAGGGTG
* * * * *
3232590 CCACT-GACTTGTGGGCTTTGAAAAAAAGGTGCCACTAACTTATGGGCTTTGAAAAGTGTGCCAC
1 CCACTAGACTTGTGGGCTTTG-AAAAGAGTTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* * ** * * * *
3232654 TGACTTGTAGGCTTTGAAAAAAAAGTGTCACTAACTTGTGGGCTTTGAAAAGTGTGCCACTAACT
64 CGACTTGTGGGCTTTG---AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
3232719 TGTGGGCTTT-AGAAGGGTG
126 TGTGGGCTTTGA-AAGGGTG
* * * * * * * * *
3232738 CCACTA-ACTTCTAGACTTT-AAAAGGGGATGCCACTAACTTGTGGGCTTTGGAAGAGTGCCACT
1 CCACTAGACTTGTGGGCTTTGAAAA-GAGTTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACC
*
3232801 AACTTGTGGGCTTTGAAAAGGGTGCCAC
65 GACTTGTGGGCTTTG-AAAGGGTGCCAC
3232829 GGAGTTGTAG
Statistics
Matches: 801, Mismatches: 113, Indels: 126
0.77 0.11 0.12
Matches are distributed among these distances:
141 6 0.01
142 3 0.00
143 29 0.04
144 69 0.09
145 34 0.04
146 92 0.11
147 150 0.19
148 256 0.32
149 95 0.12
150 65 0.08
151 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (144 bp):
CCACTAGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCG
ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG
GCTTTGAAAGGGTG
Found at i:3231979 original size:29 final size:28
Alignment explanation
Indices: 3231705--3232828 Score: 798
Period size: 30 Copynumber: 38.1 Consensus size: 28
3231695 AAAAAATGTA
3231705 CCACTAACTTGTGTAGGCTTTGAAAAGAGTTG
1 CCACTAACTTGTG--GGCTTTGAAAAG-G-TG
** *
3231737 CCACGGACTTGTAGGG-TTTGAAAAGAGTTT
1 CCACTAACTTGT-GGGCTTTGAAAAG-G-TG
** * *
3231767 CCACCGACTTGTGTGGGTTTTGAAAGGGTG
1 CCACTAAC-T-TGTGGGCTTTGAAAAGGTG
** * *
3231797 CCACCGACTGGTGTGGACTTTGAAAGGGTG
1 CCACTAACT--TGTGGGCTTTGAAAAGGTG
* * *
3231827 CCA-TCGACTTGTAGGCTTTGAAAGGGTG
1 CCACT-AACTTGTGGGCTTTGAAAAGGTG
* *
3231855 CTACTAGCTTGTAGGG-TTTGAAAAGAGTTG
1 CCACTAACTTGT-GGGCTTTGAAAAG-G-TG
* *
3231885 CCA-TCGACTTGTGTAGGCTTTGAAAGGGTG
1 CCACT-AACTTGTG--GGCTTTGAAAAGGTG
** *
3231915 CCACCGACTTGTGAGCTTTGAAAAAAAGGTG
1 CCACTAACTTGTGGGCTTTG---AAAAGGTG
* *
3231946 ACACTAACTTGAGGGCTTTGAAAAGTGTG
1 CCACTAACTTGTGGGCTTTGAAAAG-GTG
* * *
3231975 CCACTGACTTATGGGCTTTGGAAAGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
* ** *
3232003 CCACCGATTTGTGTGGGCTTTGAAAGGGTATG
1 CCA-CTAACT-TGTGGGCTTTGAAAAGG--TG
* *
3232035 CCACTAACTTATGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
* * *
3232063 CCACTAACTTGTAGGCTTTGGAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
* **
3232091 CCACCGATTTGTGTGGGCTTTGAAAAGAGTTG
1 CCA-CTAACT-TGTGGGCTTTGAAAAG-G-TG
* *
3232123 TCACCT-ACTTGTGTGAGCTTTGAAAAGATG
1 CCA-CTAACTTGTG-G-GCTTTGAAAAGGTG
* *
3232153 CCACCAACTTGTGGGCTTTGAAAGGGTATG
1 CCACTAACTTGTGGGCTTTGAAAAGG--TG
* **
3232183 CCACTGACTTGTGGATTTTG-AAAGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
* *
3232210 CCACTAACTTGTGGGCTTTTAAAA-GTA
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
*
3232237 CCACTGACTTGTGGGCTTTGAAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAA-GGTG
*
3232266 CCACTGACTTGTGGGCTTTGAAAAAAAGGTG
1 CCACTAACTTGTGGGCTTTG---AAAAGGTG
**
3232297 CCACTAACTTGTGACCTTTGAAAAGCGTG
1 CCACTAACTTGTGGGCTTTGAAAAG-GTG
* *
3232326 CCACTAACTTATGGGCTTTGGAAAGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
** * *
3232354 CCACCGATTTGTGTGAGCTTTGAAAGGGTATG
1 CCACTAACTTGTG-G-GCTTTGAAAAGG--TG
* *
3232386 CCACTAACTTATGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
*
3232414 CCACTAACTTGTGGGCTTT-AGAAGGGTG
1 CCACTAACTTGTGGGCTTTGA-AAAGGTG
* **
3232442 CCACCGATTTGTGTGGGCTTTGAAAAGAGTTG
1 CCA-CTAACT-TGTGGGCTTTGAAAAG-G-TG
*
3232474 CCA-TCGACTTGTGTGAGCTTTGAAAAGGTG
1 CCACT-AACTTGTG-G-GCTTTGAAAAGGTG
** * *
3232504 CCACCGACTTGTAGGCTTTGAAAGGGTATG
1 CCACTAACTTGTGGGCTTTGAAAAGG--TG
* *
3232534 CCACTGACTTGTGGGTTTTG-AAAGGTG
1 CCACTAACTTGTGGGCTTTGAAAAGGTG
*
3232561 CCACTGACTTGTGGGCTTTGAAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAA-GGTG
*
3232590 CCACTGACTTGTGGGCTTTGAAAAAAAGGTG
1 CCACTAACTTGTGGGCTTTG---AAAAGGTG
*
3232621 CCACTAACTTATGGGCTTTGAAAAGTGTG
1 CCACTAACTTGTGGGCTTTGAAAAG-GTG
* * *
3232650 CCACTGACTTGTAGGCTTTGAAAAAAAAGTG
1 CCACTAACTTGTGGGCTTTG---AAAAGGTG
*
3232681 TCACTAACTTGTGGGCTTTGAAAAGTGTG
1 CCACTAACTTGTGGGCTTTGAAAAG-GTG
*
3232710 CCACTAACTTGTGGGCTTT-AGAAGGGTG
1 CCACTAACTTGTGGGCTTTGA-AAAGGTG
* * *
3232738 CCACTAACTTCTAGACTTT-AAAAGGGGATG
1 CCACTAACTTGTGGGCTTTGAAAA--GG-TG
*
3232768 CCACTAACTTGTGGGCTTTG-GAAGAGTG
1 CCACTAACTTGTGGGCTTTGAAAAG-GTG
3232796 CCACTAACTTGTGGGCTTTGAAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAA-GGTG
3232825 CCAC
1 CCAC
3232829 GGAGTTGTAG
Statistics
Matches: 889, Mismatches: 130, Indels: 149
0.76 0.11 0.13
Matches are distributed among these distances:
27 66 0.07
28 206 0.23
29 176 0.20
30 243 0.27
31 107 0.12
32 90 0.10
33 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
CCACTAACTTGTGGGCTTTGAAAAGGTG
Found at i:3232364 original size:351 final size:350
Alignment explanation
Indices: 3231705--3232820 Score: 1327
Period size: 351 Copynumber: 3.2 Consensus size: 350
3231695 AAAAAATGTA
* * * * *
3231705 CCACTAACTTGTGTAGGCTTTGAAAAGAGTTGCCACGGACTTGT-AGGG-TTTGAAAAGAGTT-T
1 CCACTAAC-T-TGTAGGCTTTG-GAAG-GGTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGT
* * * *
3231767 CCACCGACTTGTGTGGGTTTTGAAAGGGTGCCACCGACTGGTGTGGACTTTGAAAGGG--TGCCA
62 -CACCGACTTGTGTGAGCTTTGAAAAGGTGCCACCGACT--TGTGGGCTTTGAAAGGGTATGCCA
* * *
3231830 -TCGACTTGTAGGCTTTGAAAGGGTGCTACTAGCTTGTAGGG-TTTGAAAAGAGTTGCCA-TCGA
124 CT-GACTTGT-GGTTTTGAAA-GGTGCCACTAACTTGT-GGGCTTT-AAAA-AG-TGCCACT-GA
* * *
3231892 CTTGTGTAGGCTTTG-AAAGGGTGCCACCGACTTGTGAGCTTTGAAAAAAAGGTGACACTAACTT
181 CTTGTG--GGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAAAGGTGCCACTAACTT
* * * *
3231956 GAGGGCTTTGAAAAGTGTGCCACTGACTTATGGGCTTTGGAAAGGTGCCACCGATTTGTGTGGGC
244 GTGAGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGGAAAGGTGCCACCGATTTGTGTGGGC
3232021 TTTGAAAGGGTATGCCACTAACTTATGGGCTTTGAAAGGGTG
309 TTTGAAAGGGTATGCCACTAACTTATGGGCTTTGAAAGGGTG
3232063 CCACTAACTTGTAGGCTTTGGAAGGGTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGTCACC
1 CCACTAACTTGTAGGCTTTGGAAGGGTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGTCACC
* * *
3232128 TACTTGTGTGAGCTTTGAAAAGATGCCACCAACTTGTGGGCTTTGAAAGGGTATGCCACTGACTT
66 GACTTGTGTGAGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTT
* *
3232193 GTGGATTTTGAAAGGTGCCACTAACTTGTGGGCTTTTAAAAGTACCACTGACTTGTGGGCTTTGA
131 GTGG-TTTTGAAAGGTGCCACTAACTTGTGGGCTTTAAAAAGTGCCACTGACTTGTGGGCTTTGA
* *
3232258 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAAAGGTGCCACTAACTTGTGACCTTTGAAAAGC
195 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAAAGGTGCCACTAACTTGTGAGCTTTGAAAAGA
*
3232323 GTGCCACTAACTTATGGGCTTTGGAAAGGTGCCACCGATTTGTGTGAGCTTTGAAAGGGTATGCC
260 GTGCCACTAACTTATGGGCTTTGGAAAGGTGCCACCGATTTGTGTGGGCTTTGAAAGGGTATGCC
3232388 ACTAACTTATGGGCTTTGAAAGGGTG
325 ACTAACTTATGGGCTTTGAAAGGGTG
* * * *
3232414 CCACTAACTTGTGGGCTTTAGAAGGGTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGCCATC
1 CCACTAACTTGTAGGCTTTGGAAGGGTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGTCACC
*
3232479 GACTTGTGTGAGCTTTGAAAAGGTGCCACCGACTTGTAGGCTTTGAAAGGGTATGCCACTGACTT
66 GACTTGTGTGAGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTT
* *
3232544 GTGGGTTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTT
131 GT-GGTTTTGAAAGGTGCCACTAACTTGTGGGCTTT-AAAA-AGTGCCACTGACTTGTGGGCTTT
* * * *
3232609 GAAAAAAAGGTGCCACTAACTTATGGGCTTTG---AAAAGTGTGCCACTGACTTGT-AGGCTTTG
193 G--AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAAAG-GTGCCACTAACTTGTGA-GCTTTG
* * * * * **
3232670 AAAAAAAAGTGTCACTAACTTGTGGGCTTTGAAAAGTGTGCCA-CTAACT-TGTGGGCTTT-AGA
254 --AAAAGAGTGCCACTAACTTATGGGCTTTGGAAAG-GTGCCACCGATTTGTGTGGGCTTTGA-A
* * * *
3232732 AGGG--TGCCACTAACTTCTAGACTTTAAAAGGGGATG
315 AGGGTATGCCACTAACTTATGGGCTTTGAAA-GGG-TG
* * * **
3232768 CCACTAACTTGTGGGCTTTGGAAGAGTGCCA-CTAACT-TGTGGGCTTTGAAAAG
1 CCACTAACTTGTAGGCTTTGGAAGGGTGCCACCGATTTGTGTGGGCTTTGAAAAG
3232821 GGTGCCACGG
Statistics
Matches: 674, Mismatches: 61, Indels: 52
0.86 0.08 0.07
Matches are distributed among these distances:
350 7 0.01
351 301 0.45
352 60 0.09
353 51 0.08
354 80 0.12
355 83 0.12
356 81 0.12
357 3 0.00
358 8 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (350 bp):
CCACTAACTTGTAGGCTTTGGAAGGGTGCCACCGATTTGTGTGGGCTTTGAAAAGAGTTGTCACC
GACTTGTGTGAGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTT
GTGGTTTTGAAAGGTGCCACTAACTTGTGGGCTTTAAAAAGTGCCACTGACTTGTGGGCTTTGAA
AAGGGTGCCACTGACTTGTGGGCTTTGAAAAAAAGGTGCCACTAACTTGTGAGCTTTGAAAAGAG
TGCCACTAACTTATGGGCTTTGGAAAGGTGCCACCGATTTGTGTGGGCTTTGAAAGGGTATGCCA
CTAACTTATGGGCTTTGAAAGGGTG
Found at i:3232772 original size:30 final size:28
Alignment explanation
Indices: 3232557--3232848 Score: 116
Period size: 29 Copynumber: 10.0 Consensus size: 28
3232547 GGTTTTGAAA
* * * *
3232557 GGTGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTCTAGACTTT-AAAAG
* * * * *
3232586 GGTGCCACTGACTTGTGGGCTTTGAAAAAAA
1 GGTGCCACTAACTTCTAGACTTT---AAAAG
* * *
3232617 GGTGCCACTAACTTATGGGCTTTGAAAAG
1 GGTGCCACTAACTTCTAGACTTT-AAAAG
* * * * *
3232646 TGTGCCACTGACTTGTAGGCTTTGAAAAAAA
1 GGTGCCACTAACTTCTAGACTTT---AAAAG
* * * * *
3232677 AGTGTCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTCTAGACTTT-AAAAG
* * * * *
3232706 TGTGCCACTAACTTGTGGGCTTTAGAAG
1 GGTGCCACTAACTTCTAGACTTTAAAAG
3232734 GGTGCCACTAACTTCTAGACTTTAAAAGG
1 GGTGCCACTAACTTCTAGACTTTAAAA-G
* * * **
3232763 GGATGCCACTAACTTGTGGGCTTTGGAAG
1 GG-TGCCACTAACTTCTAGACTTTAAAAG
* * * *
3232792 AGTGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTCTAGACTTT-AAAAG
** * *
3232821 GGTGCCACGGAGTTGTAGACTTTAAAAG
1 GGTGCCACTAACTTCTAGACTTTAAAAG
3232849 AAAAAGGTTG
Statistics
Matches: 216, Mismatches: 40, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
28 52 0.24
29 96 0.44
30 20 0.09
31 48 0.22
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (28 bp):
GGTGCCACTAACTTCTAGACTTTAAAAG
Found at i:3232877 original size:34 final size:34
Alignment explanation
Indices: 3232816--3232885 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
3232806 GTGGGCTTTG
* *
3232816 AAAAGGGTGCCACGGAGTTGTAGACTTTAAAAGA
1 AAAAGGGTGCCACGAAGTTGGAGACTTTAAAAGA
* *
3232850 AAAAGGTTGCCACGAAGTTGCGA-ACTTTGAAAGA
1 AAAAGGGTGCCACGAAGTTG-GAGACTTTAAAAGA
3232884 AA
1 AA
3232886 TGCCACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (34 bp):
AAAAGGGTGCCACGAAGTTGGAGACTTTAAAAGA
Found at i:3241369 original size:19 final size:20
Alignment explanation
Indices: 3241347--3241388 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
3241337 TTTTTTCGAG
3241347 TTTTCATTT-TTTC-ATAACT
1 TTTTCATTTATTTCTATAA-T
*
3241366 TTTTCTTTTATTTCTATAAT
1 TTTTCATTTATTTCTATAAT
3241386 TTT
1 TTT
3241389 AAAACTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 8 0.40
21 4 0.20
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTCATTTATTTCTATAAT
Found at i:3243401 original size:156 final size:154
Alignment explanation
Indices: 3243105--3243499 Score: 477
Period size: 156 Copynumber: 2.5 Consensus size: 154
3243095 AAGGTTTACG
* * * * ** *
3243105 GGCATTTTCATAATTTTCTTAGAATCGAGTCCTAAGTTGTCACTTTGATGCTTTTATACCAAAGG
1 GGCATTTTCATAATTATCTTATAATAGAGTCCTAGGTTGTCAC-AAGATGCTTTTATGCCAAA-G
* * **
3243170 TGTACATTTAGGATAGGTTCGTCCAATTTATGATCATTTTAGTATCTATTAAGGTTACCAGGATA
64 TGTGCATTTAGGATAGGTTCATCCAATTTATGATCATTTTAGTATCTATTAAGGTTACCAAAATA
* *
3243235 TTTTCATGTCAAAGGTATACCCTAAA
129 TTTTCATGTCAAAAGAATACCCTAAA
* * *
3243261 GGTATTTTCATAATTATCCTATAATTGAGTCCTAGGTTGTCATCAAGATGCTTTTATGCCGAAAG
1 GGCATTTTCATAATTATCTTATAATAGAGTCCTAGGTTGTCA-CAAGATGCTTTTATGCC-AAAG
* *
3243326 TATGCATTTAGGATAGGTTCATCCAATTTATGATCATTTTAGTGTCTATTAAGGTTACCGAAAAT
64 TGTGCATTTAGGATAGGTTCATCCAATTTATGATCATTTTAGTATCTATTAAGGTTACC-AAAAT
** * *
3243391 -TTTTTTTGTCAAAAGAATACCCTGAG
128 ATTTTCATGTCAAAAGAATACCCTAAA
* * * *
3243417 GGCATTTTTATAATTATCTTATAATAGAGTTCTAGGTTGTCACAGGGATGCTTTTATGTCAAAAG
1 GGCATTTTCATAATTATCTTATAATAGAGTCCTAGGTTGTCACA-AGATGCTTTTATG-CCAAAG
*
3243482 TGTGTATTTAGGATAGGT
64 TGTGCATTTAGGATAGGT
3243500 AAATCTTTCA
Statistics
Matches: 204, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
155 2 0.01
156 194 0.95
157 8 0.04
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (154 bp):
GGCATTTTCATAATTATCTTATAATAGAGTCCTAGGTTGTCACAAGATGCTTTTATGCCAAAGTG
TGCATTTAGGATAGGTTCATCCAATTTATGATCATTTTAGTATCTATTAAGGTTACCAAAATATT
TTCATGTCAAAAGAATACCCTAAA
Found at i:3244176 original size:25 final size:24
Alignment explanation
Indices: 3244109--3244176 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
3244099 GAACTATAAT
* *
3244109 TAAATATCAAATATTAAG-ATTGAA
1 TAAAAATCAAA-ATTAAGTATCGAA
3244133 TAAAAATCAAAATGTAAGTATCGAA
1 TAAAAATCAAAAT-TAAGTATCGAA
3244158 TAAAAATCAAAACTTAAGT
1 TAAAAATCAAAA-TTAAGT
3244177 CAACACATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.05
24 14 0.36
25 22 0.56
26 1 0.03
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.28
Consensus pattern (24 bp):
TAAAAATCAAAATTAAGTATCGAA
Found at i:3245246 original size:40 final size:40
Alignment explanation
Indices: 3245199--3245319 Score: 120
Period size: 40 Copynumber: 3.0 Consensus size: 40
3245189 AGGGTTGACC
* *
3245199 AGACAAAACTTACAAGTCAACGAATAAAAAAAGTTGA-TCA
1 AGACAAAACTAACAAGTCAACAAATAAAAAAAGTTGACT-A
* * **
3245239 AGACAAAA-TCAACAAGTAAATAAATAATGAAAGTTGACTA
1 AGACAAAACT-AACAAGTCAACAAATAAAAAAAGTTGACTA
* * * *
3245279 AGACAAAACTGACAAGTCAACAAATGAAAAAGGTTGGCTA
1 AGACAAAACTAACAAGTCAACAAATAAAAAAAGTTGACTA
3245319 A
1 A
3245320 CATTGATACT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
39 1 0.02
40 61 0.95
41 2 0.03
ACGTcount: A:0.55, C:0.13, G:0.15, T:0.17
Consensus pattern (40 bp):
AGACAAAACTAACAAGTCAACAAATAAAAAAAGTTGACTA
Found at i:3246576 original size:28 final size:28
Alignment explanation
Indices: 3246544--3246617 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
3246534 CCTTTTTGGG
3246544 TTTTTATCTAATTTTTTAATTTTT-TTCT
1 TTTTTAT-TAATTTTTTAATTTTTCTTCT
* * *
3246572 TTTTTATTTTTGATTTTTGATTTTTTCTTCT
1 TTTTTA---TTAATTTTTTAATTTTTCTTCT
3246603 TTTTT-TTAATTTTTT
1 TTTTTATTAATTTTTT
3246618 TAGCATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
27 8 0.22
28 6 0.16
30 13 0.35
31 10 0.27
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (28 bp):
TTTTTATTAATTTTTTAATTTTTCTTCT
Found at i:3249625 original size:155 final size:155
Alignment explanation
Indices: 3249274--3249633 Score: 385
Period size: 155 Copynumber: 2.3 Consensus size: 155
3249264 TACTTGAATG
* * * * * *
3249274 TCCCTAAGGCATAACTTCGACGTGAAAGTAT-CTCGGTTACCCTAATA-GACCTTAAAACAATCA
1 TCCCTAGGGTATACCTTCGACGTGAAAGTATCCT-AGTAATCCTAA-AGGACCTTAAAACAATCA
* * * * * *
3249337 TAAATAGGGTAAACCTATCCTAAATACACATCTTTGGCATAAAAGCATCCCGATGGCAACCTAGG
64 TAAATAGGATAAACCTATCCTAAATACACACCTTTGGCATAAAAGAATCCCAATGACAACCTAAG
*
3249402 ACTAGGTTTTATAAAATTACAAAAATA
129 ACTAGGTTTTAAAAAATTACAAAAATA
* * *
3249429 -CCCTTATGGGTATACCTTCAACATGAAAGTATCC-CGATAATCCTAAAGGA-CTTAAAA-AGAT
1 TCCC-TA-GGGTATACCTTCGACGTGAAAGTATCCTAG-TAATCCTAAAGGACCTTAAAACA-AT
* * * *
3249490 CATAAAT-GAGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGAATCCTAATGACAACTT
62 CATAAATAG-GATAAACCTATCCTAAATACACACCTTTGGCATAAAAGAATCCCAATGACAACCT
*
3249554 AAGACTTA-GTTTTAAAAAAATTACGAAAATA
126 AAGAC-TAGGTTTT-AAAAAATTACAAAAATA
*
3249585 TCCCTAGGGTATACCTTCGACGTGAAAGTATCCTAGTAATCTTAAAGGA
1 TCCCTAGGGTATACCTTCGACGTGAAAGTATCCTAGTAATCCTAAAGGA
3249634 TAGGAGAATA
Statistics
Matches: 170, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
154 5 0.03
155 112 0.66
156 49 0.29
157 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (155 bp):
TCCCTAGGGTATACCTTCGACGTGAAAGTATCCTAGTAATCCTAAAGGACCTTAAAACAATCATA
AATAGGATAAACCTATCCTAAATACACACCTTTGGCATAAAAGAATCCCAATGACAACCTAAGAC
TAGGTTTTAAAAAATTACAAAAATA
Found at i:3250211 original size:165 final size:163
Alignment explanation
Indices: 3249774--3250347 Score: 584
Period size: 165 Copynumber: 3.5 Consensus size: 163
3249764 AAACGATACA
* * * * ** * **
3249774 AAAAGTTTTAAAAATTTCTATATCTCTGCGGAAGGCCATAAAAACAATAGAAATCTAAAGAAAAT
1 AAAAG-TTTAAAAATTTCTATACCCCTACAGAAGGCCATAGGAATAATAGAAAT-TTTA-AAAAT
* * * * * * *
3249839 GACTCAGAT-AGTGATTTTTCTTC-CAAAACTAGATTTGTTATTTAGTCTCTAAGC-TTTAAAAA
63 GACTAAAATGA-TGATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTTAAAAA
** * *
3249901 TTTTGTTTGATACCCGACGAAAAA-TCGAGACGATATG
127 TTTCATTTCATACCCGACGAAAAACT-GAGAGGATATG
** *
3249938 AAAAGTTTAAAAATTTCTATACCCCTACAGAAGGTTATAGGAATAATAGAAATTTAAAGAAAATG
1 AAAAGTTTAAAAATTTCTATACCCCTACAGAAGGCCATAGGAATAATAGAAATTT-TA-AAAATG
* * *
3250003 ACTAAGATGATTATTTTTCTTCTAAAAACTAAATTTTCTATTTAGTCCCTAAACTTTTAAAAATT
64 ACTAAAATGATGATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTTAAAAATT
* * * *
3250068 TCATTTCATGCCCAACAAAAAACTGAGAGGATACG
129 TCATTTCATACCCGACGAAAAACTGAGAGGATATG
* * * *
3250103 AAAAGTTTAAAAAAATTTCTGTACCCCTACAGCAGGCCATAGGATTACTAGAAATCTTTAAAAAT
1 AAAAGTTT--AAAAATTTCTATACCCCTACAGAAGGCCATAGGAATAATAGAAAT-TTTAAAAAT
* * * *
3250168 GACTAAAATGATGATTTTTCTTTTGAAAAC-AAATTTGCTATTTAGTCCCTAAAGTTTTAAATAT
63 GACTAAAATGATGATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTTAAAAAT
** * *
3250232 TTCATTTCATACATGATGAAAAACTGAAAGGATATG
128 TTCATTTCATACCCGACGAAAAACTGAGAGGATATG
* * * *
3250268 AAAAGTTTTGAAAATTTCTATACCCTTACGGAAGGCCATAGGAACAATAGAAATTTTAAAAATG-
1 AAAAG-TTTAAAAATTTCTATACCCCTACAGAAGGCCATAGGAATAATAGAAATTTTAAAAATGA
3250332 CATAAAATGATGATTT
65 C-TAAAATGATGATTT
3250348 CATGCTTGGA
Statistics
Matches: 344, Mismatches: 56, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
162 2 0.01
163 90 0.26
164 68 0.20
165 107 0.31
166 35 0.10
167 40 0.12
168 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (163 bp):
AAAAGTTTAAAAATTTCTATACCCCTACAGAAGGCCATAGGAATAATAGAAATTTTAAAAATGAC
TAAAATGATGATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTTAAAAATTTC
ATTTCATACCCGACGAAAAACTGAGAGGATATG
Found at i:3251142 original size:19 final size:21
Alignment explanation
Indices: 3251102--3251143 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
3251092 AAGGTTTAAT
3251102 ATGAATTTAATAAAAATATTTG
1 ATGAATTT-ATAAAAATATTTG
3251124 ATGAATTT-TAAAAAT-TTTG
1 ATGAATTTATAAAAATATTTG
3251143 A
1 A
3251144 ACTAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
ATGAATTTATAAAAATATTTG
Found at i:3251226 original size:154 final size:154
Alignment explanation
Indices: 3251066--3251349 Score: 351
Period size: 155 Copynumber: 1.8 Consensus size: 154
3251056 AATTTACAAC
* * * * * *
3251066 TCATAAAATAAATTGACTTCTCT-AAAA-AGGTTTAATAT-GAATTTAATAAAAATATTTGATGA
1 TCATAAAATAAATTAAATT-TCTGAAAATAGATTTAATATAG-ATTAAACAAAAATATTTGAGGA
* * *
3251128 ATTTTAAAAATTTTGAACTAAGAAAAATCCAATC-GAAAAAATTTACGAAGTAGAAAACTCTATA
64 ATTTTAAAAATTATAAACTAAGAAAAATCCAA-CAG-AAAAATTTACGAAGTAGAAAACTCCATA
3251192 TTTTGATAGCAGGAAAAATCATAAAACT
127 TTTTGATAGCAGGAAAAATCATAAAACT
* * *
3251220 TCATAAAATAAATTAAATTTTTGAAAATTGATTTAATATAGATTAAACAATAATATTTGAGGAAT
1 TCATAAAATAAATTAAATTTCTGAAAATAGATTTAATATAGATTAAACAAAAATATTTGAGGAAT
* * * * *
3251285 TTTAAAAATTATAAACTTAGAAAAATCCTACAGAGAATTTTACGGAGTAGAAAACTCCATATTTT
66 TTTAAAAATTATAAACTAAGAAAAATCCAACAGAAAAATTTACGAAGTAGAAAACTCCATATTTT
3251350 AAAAATAGAA
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
153 2 0.02
154 50 0.46
155 56 0.51
156 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.33
Consensus pattern (154 bp):
TCATAAAATAAATTAAATTTCTGAAAATAGATTTAATATAGATTAAACAAAAATATTTGAGGAAT
TTTAAAAATTATAAACTAAGAAAAATCCAACAGAAAAATTTACGAAGTAGAAAACTCCATATTTT
GATAGCAGGAAAAATCATAAAACT
Found at i:3257879 original size:19 final size:18
Alignment explanation
Indices: 3257835--3257879 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
3257825 TGCTCAGAAT
*
3257835 ACCCAAAATGTCTAAAAC
1 ACCCAAAATATCTAAAAC
3257853 ACCCAAAATATCATAAAA-
1 ACCCAAAATATC-TAAAAC
3257871 ACCCTAAAA
1 ACCC-AAAA
3257880 ACTACCAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.16
Consensus pattern (18 bp):
ACCCAAAATATCTAAAAC
Found at i:3260112 original size:20 final size:22
Alignment explanation
Indices: 3260082--3260125 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
3260072 TGATTTCCCG
3260082 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
3260103 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
3260124 TG
1 TG
3260126 AAAAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:3260198 original size:13 final size:13
Alignment explanation
Indices: 3260180--3260205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3260170 CAAGTTTTTG
3260180 TGTATCGATACAT
1 TGTATCGATACAT
3260193 TGTATCGATACAT
1 TGTATCGATACAT
3260206 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3260230 original size:19 final size:18
Alignment explanation
Indices: 3260160--3260230 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
3260150 TACAAGCCAA
*
3260160 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
3260180 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
3260193 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
3260212 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
3260231 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:3262777 original size:13 final size:13
Alignment explanation
Indices: 3262759--3262784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3262749 ATAATCACCC
3262759 TGTATCGATACAA
1 TGTATCGATACAA
3262772 TGTATCGATACAA
1 TGTATCGATACAA
3262785 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3264872 original size:15 final size:15
Alignment explanation
Indices: 3264852--3264881 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3264842 GTTCATCAAT
3264852 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
3264867 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
3264882 CTCAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:3268863 original size:20 final size:22
Alignment explanation
Indices: 3268833--3268876 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
3268823 TGATTTCCCG
3268833 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
3268854 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
3268875 TG
1 TG
3268877 AAAAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:3268968 original size:19 final size:19
Alignment explanation
Indices: 3268911--3268968 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
3268901 TACAAGCCAA
*
3268911 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAAG-TTTGG
*
3268931 TGTATCGATACATA-CTTGG
1 TGTATCGATACA-AGTTTGG
3268950 TGTATCGATACAAGTTTGG
1 TGTATCGATACAAGTTTGG
3268969 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (19 bp):
TGTATCGATACAAGTTTGG
Found at i:3271837 original size:20 final size:20
Alignment explanation
Indices: 3271812--3271860 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
3271802 ACCTGCATGT
3271812 ATCGATACAATAAAGAATGC
1 ATCGATACAATAAAGAATGC
* *
3271832 ATCGATATAATAAAGAATGT
1 ATCGATACAATAAAGAATGC
3271852 ATCGATACA
1 ATCGATACA
3271861 TTTGGGTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.24
Consensus pattern (20 bp):
ATCGATACAATAAAGAATGC
Found at i:3271915 original size:20 final size:21
Alignment explanation
Indices: 3271878--3271932 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
3271868 CAAAAACCCA
*
3271878 AAATATATCGATAC-AATGG-
1 AAATGTATCGATACAAATGGT
3271897 ATAATGTATCG-TACAAATGGT
1 A-AATGTATCGATACAAATGGT
3271918 AAATGTATCGATACA
1 AAATGTATCGATACA
3271933 TTTCCTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 22 0.71
21 5 0.16
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (21 bp):
AAATGTATCGATACAAATGGT
Found at i:3271943 original size:20 final size:20
Alignment explanation
Indices: 3271920--3271959 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3271910 CAAATGGTAA
*
3271920 ATGTATCGATACATTTCCTT
1 ATGTAGCGATACATTTCCTT
3271940 ATGTAGCGATACATTTCCTT
1 ATGTAGCGATACATTTCCTT
3271960 TCCAGAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTAGCGATACATTTCCTT
Found at i:3272025 original size:20 final size:20
Alignment explanation
Indices: 3272000--3272038 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3271990 CATTTCATGC
3272000 ATGTATCGATAAATTTACTT
1 ATGTATCGATAAATTTACTT
*
3272020 ATGTATCGATATATTTACT
1 ATGTATCGATAAATTTACT
3272039 ATTTATATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
ATGTATCGATAAATTTACTT
Found at i:3277371 original size:208 final size:207
Alignment explanation
Indices: 3277009--3277422 Score: 702
Period size: 208 Copynumber: 2.0 Consensus size: 207
3276999 CATGAAAGAG
* *
3277009 AATTGGTGCTTAGAAAAATTCTCCTAAATAGACTCCAAATTGGGAGGGCCTTATGTGTTGAGAAG
1 AATTAGTGCTTAGAAAAATTCTCCTAAATAGACTCCAAATTGGGAGGACCTTATGTGTTGAGAAG
*
3277074 AGCTTGCTCTATAAAAGCTTTGATTTTAGAAGAGATGGATACGAAAGACTTACATGCTCTTGTGA
66 AGCTTGCTCTATAAAAGCTTTGATTTTAGAAGAAATGGATACGAAAGACTTACATGCTCTTGTGA
* *
3277139 ATGCTGATAAAGTGAAGAAGTATTATGCTTGAATTAAAAAAGAGATTTCAAATGCCAATGAACTC
131 ATGCTCATAAAGTGAAGAAGTATTATGCTTGAATTAAAAAAGAGATTTCAAATGCCAATAAACTC
3277204 GGATTTAAGAAA
196 GGATTTAAGAAA
* *
3277216 AATTAGTGCTTAGAAAAATTCTTCTAAATAGACTCCAAATTGGGAAGGACCTTATTTGTTGAGAA
1 AATTAGTGCTTAGAAAAATTCTCCTAAATAGACTCCAAATTGGG-AGGACCTTATGTGTTGAGAA
* * *
3277281 GAGCTTGCTCTATAAGAGCTTTGATTTTAGTAGAAATGGATAGGAAAGACTTACATGCTCTTGTG
65 GAGCTTGCTCTATAAAAGCTTTGATTTTAGAAGAAATGGATACGAAAGACTTACATGCTCTTGTG
* *
3277346 AATGTTCATAAAGTGAAGAAGTATTATGCTTGAATTAAAAAGGAGATTTCAAATGCCAATAAACT
130 AATGCTCATAAAGTGAAGAAGTATTATGCTTGAATTAAAAAAGAGATTTCAAATGCCAATAAACT
*
3277411 TGGATTTAAGAA
195 CGGATTTAAGAA
3277423 GCTTATTAAA
Statistics
Matches: 193, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
207 42 0.22
208 151 0.78
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (207 bp):
AATTAGTGCTTAGAAAAATTCTCCTAAATAGACTCCAAATTGGGAGGACCTTATGTGTTGAGAAG
AGCTTGCTCTATAAAAGCTTTGATTTTAGAAGAAATGGATACGAAAGACTTACATGCTCTTGTGA
ATGCTCATAAAGTGAAGAAGTATTATGCTTGAATTAAAAAAGAGATTTCAAATGCCAATAAACTC
GGATTTAAGAAA
Found at i:3278384 original size:103 final size:103
Alignment explanation
Indices: 3278190--3278398 Score: 348
Period size: 103 Copynumber: 2.0 Consensus size: 103
3278180 TACTAGTTTC
* *
3278190 AATATTTTAGCAAAATAGGAAAATATGAGTTTTATTTTTCATTCCAACCCTAGCTATTTCAATCT
1 AATATTTAAGCAAAATAGGAAAATATAAGTTTTATTTTTCATTCCAACCCTAGC--TTTCAATCT
3278255 TTTAACCGAGTAAATGAGGAATTTTCAATCTTTGATCCTA
64 TTTAACCGAGTAAATGAGGAATTTTCAATCTTTGATCCTA
* *
3278295 AATATTTAAGCAAAATAGGAAAAATATAAGTTTTATTTTTCATTCCAACCTTAGC-TTCAATTTT
1 AATATTTAAGCAAAATAGG-AAAATATAAGTTTTATTTTTCATTCCAACCCTAGCTTTCAATCTT
3278359 TTAACCGAGTAAATGAGGAATTTTCAATCTTTGATCCTA
65 TTAACCGAGTAAATGAGGAATTTTCAATCTTTGATCCTA
3278398 A
1 A
3278399 CTTTTGATGA
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
103 48 0.48
105 18 0.18
106 33 0.33
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (103 bp):
AATATTTAAGCAAAATAGGAAAATATAAGTTTTATTTTTCATTCCAACCCTAGCTTTCAATCTTT
TAACCGAGTAAATGAGGAATTTTCAATCTTTGATCCTA
Found at i:3278747 original size:14 final size:15
Alignment explanation
Indices: 3278723--3278751 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3278713 AAATATTTTC
3278723 AAAATTTAAATAAAT
1 AAAATTTAAATAAAT
3278738 AAAA-TTAAATAAAT
1 AAAATTTAAATAAAT
3278752 TTCATATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTTAAATAAAT
Found at i:3280020 original size:20 final size:19
Alignment explanation
Indices: 3279998--3280062 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
3279988 TTTCAAAATA
3279998 TTTTTATTATTATTTTTAT
1 TTTTTATTATTATTTTTAT
**
3280017 ATTTTTACAATTATTTTTAT
1 -TTTTTATTATTATTTTTAT
3280037 TTTATTATT-TTA-TTTTAT
1 TTT-TTATTATTATTTTTAT
3280055 TTTTTATT
1 TTTTTATT
3280063 TACTTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 5 0.12
18 9 0.22
19 6 0.15
20 20 0.50
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTATTATTATTTTTAT
Found at i:3280047 original size:13 final size:13
Alignment explanation
Indices: 3280026--3280063 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
3280016 TATTTTTACA
3280026 ATTATTTTTATTTT
1 ATTA-TTTTATTTT
3280040 ATTATTTTATTTT
1 ATTATTTTATTTT
3280053 ATT-TTTTATTT
1 ATTATTTTATTT
3280064 ACTTTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.33
13 12 0.50
14 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTATTTTATTTT
Found at i:3280770 original size:20 final size:20
Alignment explanation
Indices: 3280745--3280782 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3280735 ATTTTTACTG
3280745 ATTGTATCGATACATTATTC
1 ATTGTATCGATACATTATTC
3280765 ATTGTATCGATACATTAT
1 ATTGTATCGATACATTAT
3280783 GGGTGTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTGTATCGATACATTATTC
Found at i:3284178 original size:5 final size:5
Alignment explanation
Indices: 3284168--3284192 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3284158 AAAGATAATA
3284168 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
3284193 GGAACAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:3285818 original size:101 final size:103
Alignment explanation
Indices: 3285598--3285832 Score: 266
Period size: 101 Copynumber: 2.3 Consensus size: 103
3285588 AAGGCCAAAT
* * * * * * *
3285598 ATTTA-TCATGACAATTTTTGGCTTGAAATGGCCCAAAATTAAATACTCTCACATCTCTTTTTTT
1 ATTTAGTCAAGACAATCTTTGGCCTAAAATGGCCCAAAATTAAAGACCCTCACATCTC-TCTTTT
* *
3285662 TTAAGTCTAAAATCTTTACCAACTAAACCAAGACCCTAA
65 TTAAGTCCAAAATCTTTACCAACTAAACAAAGACCCTAA
3285701 ATTTAGTCAAGACAATCTTTGGCCTAAAATGGCCC-AAATTAAAGACCCTCACATCTC-CTTTTT
1 ATTTAGTCAAGACAATCTTTGGCCTAAAATGGCCCAAAATTAAAGACCCTCACATCTCTCTTTTT
* * *
3285764 TAGGTCCAAAATTTTTACCAACTAAACTAAAG-CCTTAAA
66 TAAGTCCAAAATCTTTACCAACTAAAC-AAAGACCCT-AA
* *
3285803 ATTT-GTGATAG-CAATCTTTAGCCTAAAATG
1 ATTTAGTCA-AGACAATCTTTGGCCTAAAATG
3285833 ACATAAAATT
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
101 53 0.46
102 11 0.10
103 25 0.22
104 25 0.22
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (103 bp):
ATTTAGTCAAGACAATCTTTGGCCTAAAATGGCCCAAAATTAAAGACCCTCACATCTCTCTTTTT
TAAGTCCAAAATCTTTACCAACTAAACAAAGACCCTAA
Found at i:3292456 original size:49 final size:49
Alignment explanation
Indices: 3292390--3292938 Score: 309
Period size: 48 Copynumber: 11.9 Consensus size: 49
3292380 ATGTTACAGA
* * *
3292390 TGCCAATATGCTGATTCAAGGCTAACGATATCGGACTTAAAGAAAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* * *
3292439 TGTCAATATGCTAATTCAAGGCCAGCGATATCGGACTTAAAG-ATGAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* * * * *
3292487 ATGCCAATGTGCTGATTCAAGGCCGGCGACATTGGACTTCAAAGATAGTTAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTT-AAAGA-A--TAAAG
* * * * *
3292541 TGCCAATACGCTGATTCAAGGCCAACGACATCGGTCTTAAAG-ATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAAT-AAAG
*
3292590 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-C-T------T---G
1 TGCCAATATGCTGATTCAAGGCCAGCGATA-TCGGACTTAAAGAATAAAG
* * * * * *
3292629 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG-ACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* *
3292677 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T------T---G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* * * * * * *
3292716 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAG-ACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* *
3292764 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T------T---G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* * * * * *
3292803 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAG-ATAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* * * * *
3292851 TGCCAATATGGTGATTCAAGGTCAACGATATTGGGCTTAAAG------G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
* *
3292894 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTA-AAGAA
3292939 GATGCCACCA
Statistics
Matches: 403, Mismatches: 58, Indels: 81
0.74 0.11 0.15
Matches are distributed among these distances:
38 3 0.01
39 96 0.24
40 3 0.01
43 36 0.09
44 3 0.01
45 1 0.00
47 2 0.00
48 109 0.27
49 102 0.25
50 8 0.02
52 5 0.01
53 32 0.08
54 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAATAAAG
Found at i:3292558 original size:53 final size:49
Alignment explanation
Indices: 3292390--3292937 Score: 355
Period size: 49 Copynumber: 11.9 Consensus size: 49
3292380 ATGTTACAGA
* * * ** *
3292390 TGCCAATATGCTGATTCAAGGCTAACGATATCGGACTTAAAGAAAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
3292439 TGTCAATATGCTAATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * *
3292488 TGCCAATGTGCTGATTCAAGGCCGGCGACATTGGACTTCAAAGATAGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTT-AAAGAT-G--AAGG
* * *
3292541 TGCCAATACGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
***
3292590 TGCCAATATGCTGATTCAAGGCCAGCG--AT---A-TT--AG--GCTTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
3292629 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * *
3292677 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
3292716 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * *
3292764 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
3292803 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGAT-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * * *
3292851 TGCCAATATGGTGATTCAAGGTCAACGATATTGGGCTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * *
3292894 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTA-AAGA
3292938 AGATGCCACC
Statistics
Matches: 400, Mismatches: 60, Indels: 79
0.74 0.11 0.15
Matches are distributed among these distances:
39 94 0.23
40 2 0.00
41 4 0.01
43 39 0.10
44 1 0.00
45 3 0.01
47 6 0.01
48 100 0.25
49 102 0.25
50 6 0.01
51 2 0.00
52 6 0.01
53 35 0.09
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
Found at i:3292580 original size:151 final size:151
Alignment explanation
Indices: 3292299--3292627 Score: 398
Period size: 151 Copynumber: 2.2 Consensus size: 151
3292289 TAATACATTG
* *
3292299 ATTCACGGCCAACGATATTAGGCTTAAAGATGAGAAGAAAGCCAATGTGCTGATTCAAGGCCAGC
1 ATTCAAGGCCAGCGATA-TAGGCTTAAAGAT-AGAAGAAAGCCAATGTGCTGATTCAAGGCCAGC
* * * *
3292364 AGCATTGAGTTAAGAAATGTTACAGATGCCAATATGCTGATTCAAGGCTAACGATATCGGACTTA
64 AGCATTGACTTAAGAAATGTTACAGATGCCAATACGCTGATTCAAGGCCAACGACATCGGACTTA
*
3292429 AAGAAAAAAGTGTCAATATGCTA
129 AAGAAAAAAGTGCCAATATGCTA
* * *
3292452 ATTCAAGGCCAGCGATATCGGACTTAAAGAT-GAAG-ATGCCAATGTGCTGATTCAAGGCCGGC-
1 ATTCAAGGCCAGCGATATAGG-CTTAAAGATAGAAGAAAGCCAATGTGCTGATTCAAGGCCAGCA
* * *
3292514 GACATTGGACTTCAA-AGATAGTTA-AGGTGCCAATACGCTGATTCAAGGCCAACGACATCGGTC
65 G-CATT-GACTT-AAGAAAT-GTTACAGATGCCAATACGCTGATTCAAGGCCAACGACATCGGAC
** * *
3292577 TTAAAGATGAAGGTGCCAATATGCTG
126 TTAAAGAAAAAAGTGCCAATATGCTA
3292603 ATTCAAGGCCAGCGATATTAGGCTT
1 ATTCAAGGCCAGCGATA-TAGGCTT
3292628 GTGCCAATGT
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
149 1 0.01
150 29 0.19
151 86 0.57
152 12 0.08
153 24 0.16
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (151 bp):
ATTCAAGGCCAGCGATATAGGCTTAAAGATAGAAGAAAGCCAATGTGCTGATTCAAGGCCAGCAG
CATTGACTTAAGAAATGTTACAGATGCCAATACGCTGATTCAAGGCCAACGACATCGGACTTAAA
GAAAAAAGTGCCAATATGCTA
Found at i:3292584 original size:102 final size:98
Alignment explanation
Indices: 3292387--3292617 Score: 291
Period size: 102 Copynumber: 2.3 Consensus size: 98
3292377 GAAATGTTAC
* * * * *
3292387 AGATGCCAATATGCTGATTCAAGGCTAACGATATCGGACTTAAAGAAAAAAGTGTCAATATGCTA
1 AGATGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAAAAAAGTGCCAATACGCTA
* *
3292452 ATTCAAGGCCAGCGATATCGGACTTAAAGATGA
66 ATTCAAGGCCAACGACATCGGACTTAAAGATGA
* * * * *
3292485 AGATGCCAATGTGCTGATTCAAGGCCGGCGACATTGGACTTCAAAGATAGTTAAGGTGCCAATAC
1 AGATGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTT-AAAGA-A--AAAAGTGCCAATAC
* *
3292550 GCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGA
62 GCTAATTCAAGGCCAACGACATCGGACTTAAAGATGA
*
3292587 AGGTGCCAATATGCTGATTCAAGGCCAGCGA
1 AGATGCCAATATGCTGATTCAAGGCCAGCGA
3292618 TATTAGGCTT
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
98 35 0.31
99 5 0.04
100 1 0.01
102 71 0.63
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (98 bp):
AGATGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAAAAAAGTGCCAATACGCTA
ATTCAAGGCCAACGACATCGGACTTAAAGATGA
Found at i:3292643 original size:39 final size:38
Alignment explanation
Indices: 3292589--3292927 Score: 228
Period size: 39 Copynumber: 7.9 Consensus size: 38
3292579 AAAGATGAAG
3292589 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGCTT
* *
3292628 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-CTT
3292667 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGCTT
* * *
3292715 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-CTT
3292754 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGCTT
* * *
3292802 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-C-T-----T
* * *
3292847 AAGGTGCCAATATGGTGATTCAAGGTCAACGATATTGGGCTT
1 ---GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGCTT
*
3292889 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
3292928 ACTTAGAAGA
Statistics
Matches: 243, Mismatches: 23, Indels: 65
0.73 0.07 0.20
Matches are distributed among these distances:
38 6 0.02
39 98 0.40
40 1 0.00
42 3 0.01
43 32 0.13
45 1 0.00
47 1 0.00
48 95 0.39
49 6 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (38 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGCTT
Found at i:3292714 original size:87 final size:87
Alignment explanation
Indices: 3292540--3292937 Score: 607
Period size: 87 Copynumber: 4.5 Consensus size: 87
3292530 GATAGTTAAG
** * * * *
3292540 GTGCCAATACGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
*
3292605 TCAAGGCCAGCGATATTAGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
*
3292628 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
3292693 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
3292715 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
3292780 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* *
3292802 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAGGTGCCAATATGGTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
3292867 CAAGGTCAACGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
3292889 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAAGA
1 ----GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTA-AAGA
3292938 AGATGCCACC
Statistics
Matches: 291, Mismatches: 14, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
87 210 0.72
88 40 0.14
91 37 0.13
92 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:3293013 original size:28 final size:27
Alignment explanation
Indices: 3292954--3293509 Score: 616
Period size: 28 Copynumber: 19.7 Consensus size: 27
3292944 CACCAACTTG
**
3292954 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGC-TTTGAAA-GG-TGCCACTGACT
* *
3292983 TGTGTGCTTTTG-AAGGTTGCCACTGCCT
1 TGTGGGC-TTTGAAAGG-TGCCACTGACT
*
3293011 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
*
3293039 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
3293067 TGTGGGCTTTTGAAAAGGTGCCACTGACT
1 TGTGGGC-TTTG-AAAGGTGCCACTGACT
* *
3293096 TGTGAGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
*
3293124 TGTGGGCCTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* *
3293152 TGTGGGCTTTTGAAAAGATGCCACTAACT
1 TGTGGGC-TTTG-AAAGGTGCCACTGACT
* *
3293181 TGTGGGATTTTG-AAGGTTGCCACTAACT
1 TGTGGG-CTTTGAAAGG-TGCCACTGACT
*
3293209 TGTGGGCTTTGAAAAGGTGCCACTGGCT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
*
3293237 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* *
3293265 TGTAGGCTTTTGAAAAGGTGCCACTAACT
1 TGTGGGC-TTTG-AAAGGTGCCACTGACT
* *
3293294 TATGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTG-AAAGGTGCCACTGACT
3293323 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAGG-TGCCACTGACT
3293351 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* *
3293379 TGTGGACTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* *
3293407 TGTGGGCTTTTGAAAAGATCCCACTGACT
1 TGTGGGC-TTTG-AAAGGTGCCACTGACT
3293436 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
3293464 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
3293492 TGTGGGCTTTGAAAGGTG
1 TGTGGGCTTTGAAAGGTG
3293510 AGGAATGTCT
Statistics
Matches: 473, Mismatches: 40, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
27 30 0.06
28 285 0.60
29 158 0.33
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (27 bp):
TGTGGGCTTTGAAAGGTGCCACTGACT
Found at i:3293098 original size:85 final size:85
Alignment explanation
Indices: 3292954--3293509 Score: 754
Period size: 85 Copynumber: 6.6 Consensus size: 85
3292944 CACCAACTTG
* ** * *
3292954 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG--AAGGTTGCCACTGCCTTGTGG
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACTTGTGGGCTTTTGAAAAGG-TGCCACTGACTTGTGG
*
3293016 GCTTTGAAAAGATGCCACTGACT
63 GCTTTGAAAAGGTGCCACTGACT
* *
3293039 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGAGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCT
*
3293104 TTGAAAAGATGCCACTGACT
66 TTGAAAAGGTGCCACTGACT
* * * *
3293124 TGTGGGCCTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGAT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGG-C
*
3293189 TTTG--AAGGTTGCCACTAACT
65 TTTGAAAAGG-TGCCACTGACT
* * *
3293209 TGTGGGCTTTGAAAAGGTGCCACTGGCTTGTGGGC-TTTGAAAAGGTGCCACTAACTTGTAGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGC-
*
3293273 TTTGAAAAGGTGCCACTAACT
65 TTTGAAAAGGTGCCACTGACT
* *
3293294 TATGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGG
1 TGTGGGC-TTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGG-TGCCACTGACTTGTGGG
3293357 CTTTGAAAAGGTGCCACTGACT
64 CTTTGAAAAGGTGCCACTGACT
* * * *
3293379 TGTGGACTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATCCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCT
3293444 TTGAAAAGGTGCCACTGACT
66 TTGAAAAGGTGCCACTGACT
3293464 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC-TTTG-AAAGGTG
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGGTG
3293510 AGGAATGTCT
Statistics
Matches: 424, Mismatches: 34, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
83 7 0.02
84 94 0.22
85 262 0.62
86 57 0.13
87 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (85 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCT
TTGAAAAGGTGCCACTGACT
Found at i:3293152 original size:113 final size:113
Alignment explanation
Indices: 3292954--3293509 Score: 804
Period size: 113 Copynumber: 4.9 Consensus size: 113
3292944 CACCAACTTG
* ** * *
3292954 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG--AAGGTTGCCACTGCCTTGTGG
1 TGTGGGCTTTTGAAAAGG-TGCCACTGACTTGTGGGC-TTTGAAAAGG-TGCCACTGACTTGTGG
*
3293016 GCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACT
63 GCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACT
* * *
3293067 TGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGAGCTTTGAAAAGATGCCACTGACTTGTGGGCC
1 TGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
*
3293132 TTGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTAACT
66 TTGAAAAGGTGCCACTGACTTGTGGGC-TTTGAAAAGGTGCCACTAACT
* * *
3293181 TGTGGGATTTTG--AAGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGGCTTGTGGGC
1 TGTGGGCTTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC
* *
3293244 TTTGAAAAGGTGCCACTAACTTGTAGGCTTTTGAAAAGGTGCCACTAACT
65 TTTGAAAAGGTGCCACTGACTTGTGGGC-TTTGAAAAGGTGCCACTAACT
* *
3293294 TATGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGC-TTTGAAAAGG-TGCCACTGACTTGTGGG
*
3293357 CTTTGAAAAGGTGCCACTGACTTGTGGACTTTGAAAAGGTGCCACTAACT
64 CTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACT
* *
3293407 TGTGGGCTTTTGAAAAGATCCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
3293472 TTGAAAAGGTGCCACTGACTTGTGGGCTTTG-AAAGGTG
66 TTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTG
3293510 AGGAATGTCT
Statistics
Matches: 403, Mismatches: 29, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
112 21 0.05
113 278 0.69
114 97 0.24
115 7 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (113 bp):
TGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
TTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACT
Found at i:3300194 original size:19 final size:19
Alignment explanation
Indices: 3300177--3300250 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
3300167 TTTCAAACAG
3300177 TTTGTATCGATACAAACAGAA
1 TTTGTATCGATACAAA-AG-A
* *
3300198 TATGTATCGATACATAAG-
1 TTTGTATCGATACAAAAGA
*
3300216 TGTTGTATCGATACATAAGA
1 T-TTGTATCGATACAAAAGA
*
3300236 TGTGTATCGATACAA
1 TTTGTATCGATACAA
3300251 TGTATCGCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
19 28 0.61
20 3 0.07
21 14 0.30
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (19 bp):
TTTGTATCGATACAAAAGA
Found at i:3300299 original size:13 final size:13
Alignment explanation
Indices: 3300281--3300306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3300271 GCCAAGGAAA
3300281 TGTATCGATACAT
1 TGTATCGATACAT
3300294 TGTATCGATACAT
1 TGTATCGATACAT
3300307 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3302782 original size:52 final size:51
Alignment explanation
Indices: 3302663--3303058 Score: 228
Period size: 52 Copynumber: 7.6 Consensus size: 51
3302653 TTAAGTTTCT
* * * *
3302663 CAATTGTTCATAATCGGGGATACACCAACCCCGATTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* ** * *
3302714 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACAC
** * * *
3302767 CAATTTTTCACAATCGATGATACTCCAACCTCG-TTATCTCATCGGGGATACTC-TAAC-C
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATT-T-T-AT------TTC-CAAAACAC
** * * ** * *
3302825 CCGTTATTT-TCGA--GGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CAATT-TTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
** * * * * * *
3302874 TGATTTCTCATAATGGGGGAAACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * * * *
3302925 TAATTTTCCACAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* ** * * *
3302976 GAATTTTTCTTTAATCAGGGATACTCTAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACAC
**
3303029 CAATTTTTCACAATCAAGGATACTCCAACC
1 CAATTTTTCACAATCGGGGATACTCCAACC
3303059 TCATTATTTC
Statistics
Matches: 258, Mismatches: 66, Indels: 41
0.71 0.18 0.11
Matches are distributed among these distances:
47 1 0.00
48 6 0.02
49 3 0.01
51 89 0.34
52 93 0.36
53 30 0.12
54 4 0.02
55 1 0.00
56 16 0.06
57 1 0.00
58 6 0.02
59 5 0.02
60 2 0.01
61 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
Found at i:3302816 original size:28 final size:27
Alignment explanation
Indices: 3302785--3302855 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
3302775 CACAATCGAT
*
3302785 GATACTCCAACCTCGTTATCTCATC-GGG
1 GATACTCCAACCCCGTTAT-T-ATCAGGG
* *
3302813 GATACTCTAACCCCGTTATTTTCGAGGG
1 GATACTCCAACCCCGTTATTATC-AGGG
3302841 GATACTCCAACCCCG
1 GATACTCCAACCCCG
3302856 GCTTTATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 34 0.92
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (27 bp):
GATACTCCAACCCCGTTATTATCAGGG
Found at i:3302901 original size:51 final size:51
Alignment explanation
Indices: 3302838--3303058 Score: 210
Period size: 51 Copynumber: 4.3 Consensus size: 51
3302828 TTATTTTCGA
* * * * * *
3302838 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATG
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTC-CACAATC
* *
3302889 GGGGAAACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATC
* * * ***
3302940 GGGGATACTCCAACCTCGGTTTTATTTTCAAAACACGAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAA-TTTTCCACAATC
* * * * * *
3302992 AGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTTCCACAATC
**
3303044 AAGGATACTCCAACC
1 GGGGATACTCCAACC
3303059 TCATTATTTC
Statistics
Matches: 137, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
51 72 0.53
52 56 0.41
53 9 0.07
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATC
Found at i:3303163 original size:262 final size:262
Alignment explanation
Indices: 3302674--3303168 Score: 713
Period size: 262 Copynumber: 1.9 Consensus size: 262
3302664 AATTGTTCAT
*
3302674 AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
* * * *
3302739 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGATGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCATTAT
* ** * *
3302804 CTCATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
131 CTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
* * ** *
3302869 AATATTGATTTCTCATAATGGGGGAAACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATCGATTTCTCACAACCGGAGAAACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
3302934 AC
261 AC
* * * * *
3302936 AATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACGAATTTTTCTTTAATCAGGGATACT
1 AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
*
3303001 CTAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCATTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCATTAT
* *** * *
3303066 TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAATTTCGATTTTATTTCC-T
131 CTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
* *
3303130 AATCATCGATTTTTCACAACCGGAGATACTCCAACCCCG
196 AAT-ATCGATTTCTCACAACCGGAGAAACTCCAACCCCG
3303169 TTATTTTCAA
Statistics
Matches: 203, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
261 3 0.01
262 200 0.99
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (262 bp):
AATCGGGGATACACCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCATTAT
CTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
AATATCGATTTCTCACAACCGGAGAAACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:3303183 original size:107 final size:108
Alignment explanation
Indices: 3302993--3303199 Score: 258
Period size: 107 Copynumber: 1.9 Consensus size: 108
3302983 TCTTTAATCA
* *
3302993 GGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAAC
1 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCAAGGATACTCCAAC
* *
3303058 CTCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAG
66 CCCATTATTTCATAGGGGATACTCCAACCCCGTTACCTCCGAG
* * * * * * *
3303101 GGGATACTCCAATTTCGATTTTATTTCC-TAATCATCGATTTTTCACAACC-GGAGATACTCCAA
1 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCAAG-GATACTCCAA
* *
3303164 CCCCGTTATTTTCA-AGGGGATACTCCAACCTCGTTA
65 CCCCATTA-TTTCATAGGGGATACTCCAACCCCGTTA
3303200 TTATCTCCCA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
106 1 0.01
107 53 0.63
108 30 0.36
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (108 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCAAGGATACTCCAAC
CCCATTATTTCATAGGGGATACTCCAACCCCGTTACCTCCGAG
Found at i:3313145 original size:13 final size:13
Alignment explanation
Indices: 3313127--3313152 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3313117 ACAAAGATCC
3313127 ATGTATCGATACA
1 ATGTATCGATACA
3313140 ATGTATCGATACA
1 ATGTATCGATACA
3313153 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3313867 original size:15 final size:16
Alignment explanation
Indices: 3313847--3313912 Score: 62
Period size: 15 Copynumber: 4.0 Consensus size: 16
3313837 GATAATAGCA
3313847 TTCCCTAGCAATAGT-
1 TTCCCTAGCAATAGTG
* *
3313862 TTCCCTAACAGTAGTTG
1 TTCCCTAGCAATAG-TG
* *
3313879 TTCTCCTTGATAATAGTG
1 TTC-CCTAG-CAATAGTG
3313897 TTCCCTAGCAATAGTG
1 TTCCCTAGCAATAGTG
3313913 CTTTTTAGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
15 12 0.31
16 8 0.21
17 7 0.18
18 8 0.21
19 4 0.10
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (16 bp):
TTCCCTAGCAATAGTG
Found at i:3315385 original size:23 final size:22
Alignment explanation
Indices: 3315342--3315385 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3315332 AAGATAAAAT
3315342 TTATTATAATTTTTTATAAGTA
1 TTATTATAATTTTTTATAAGTA
3315364 TTATTAGT-ATTTTATTATAAGT
1 TTATTA-TAATTTT-TTATAAGT
3315386 TTAAAAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TTATTATAATTTTTTATAAGTA
Found at i:3320453 original size:21 final size:20
Alignment explanation
Indices: 3320415--3320453 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3320405 TAAAAAAGAC
* *
3320415 TTTTAAAAAATTATTCTTTT
1 TTTTAAAAAAATACTCTTTT
3320435 TTTTAAGAAAAATACTCTT
1 TTTTAA-AAAAATACTCTT
3320454 ATTTAACTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTTAAAAAAATACTCTTTT
Found at i:3322622 original size:26 final size:26
Alignment explanation
Indices: 3322568--3322626 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
3322558 AAACAATTAT
** **
3322568 AAATATTTATGTTTCTTAAAATTTTA
1 AAATATTTATGTTTAGTAAAATTCAA
*
3322594 AAATATTTATGTTTAGTAATATTCAA
1 AAATATTTATGTTTAGTAAAATTCAA
3322620 AAA-ATTT
1 AAATATTT
3322627 TAAAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (26 bp):
AAATATTTATGTTTAGTAAAATTCAA
Found at i:3324999 original size:16 final size:16
Alignment explanation
Indices: 3324978--3325022 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
3324968 CGACTTTATT
3324978 TAATTTAAATTTAAAA
1 TAATTTAAATTTAAAA
* *
3324994 TAATTTGAATTTAAAT
1 TAATTTAAATTTAAAA
* *
3325010 TGATTCAAATTTA
1 TAATTTAAATTTA
3325023 GAATGAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:3327642 original size:63 final size:61
Alignment explanation
Indices: 3327565--3327732 Score: 189
Period size: 62 Copynumber: 2.7 Consensus size: 61
3327555 TTGTACTTTC
* * *
3327565 CTTTTAATTTTAAAACATAAAAGCTAAAAGTTAATTAAA-TTTATTTTATAATCTATTCT-TTT
1 CTTTTAATTTTAAAACATAAAA-ATAAAAGTTAA-TAAACTTT-TTCTATAATCTATTATGTTT
* * * **
3327627 ATTTTTAATTATAAAATAGTAAAAATAAATTTTAATAAACTTTTTCTATAATCTATTATGTTT
1 -CTTTTAATTTTAAAACA-TAAAAATAAAAGTTAATAAACTTTTTCTATAATCTATTATGTTT
*
3327690 CTTTTAATTTTAAAACA-AAAAATAAAATTTAATAAACTTTTTC
1 CTTTTAATTTTAAAACATAAAAATAAAAGTTAATAAACTTTTTC
3327733 CCATAAAAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
60 25 0.28
62 32 0.36
63 28 0.31
64 5 0.06
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.47
Consensus pattern (61 bp):
CTTTTAATTTTAAAACATAAAAATAAAAGTTAATAAACTTTTTCTATAATCTATTATGTTT
Found at i:3327906 original size:19 final size:20
Alignment explanation
Indices: 3327860--3327906 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
3327850 AATATCAACT
* *
3327860 TAATCAAAAAAATTACTTCA
1 TAATAAAAAAAATTAATTCA
* *
3327880 AAACAAAAAAAATTAATT-A
1 TAATAAAAAAAATTAATTCA
3327899 TAATAAAA
1 TAATAAAA
3327907 TAACATCAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (20 bp):
TAATAAAAAAAATTAATTCA
Found at i:3328453 original size:25 final size:23
Alignment explanation
Indices: 3328400--3328453 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
3328390 TAATTATATC
3328400 ATATTTAAATTTTAAATTTAAAT
1 ATATTTAAATTTTAAATTTAAAT
* *
3328423 AAATTTAACTATTTT-AATTGTAATT
1 ATATTTAA--ATTTTAAATT-TAAAT
3328448 ATATTT
1 ATATTT
3328454 TAAAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 7 0.28
24 4 0.16
25 14 0.56
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATTTAAATTTTAAATTTAAAT
Found at i:3331848 original size:96 final size:96
Alignment explanation
Indices: 3331743--3332034 Score: 253
Period size: 112 Copynumber: 2.9 Consensus size: 96
3331733 ATTAATGCTG
* * * ** * *
3331743 ATGAGGGTTTTAGG-TTTTTTTAGCTATTGTTAATCAGATGTATCGATACATTCATGTAATGTAT
1 ATGAGGGTTTTAGGATTTTTTAAGCGACTGCCAA-CAAATATATCGATACATTCATGTAATGTAT
3331807 CGATACATTGCGTATTATATGTATTGATACAA
65 CGATACATTGCGTATTATATGTATTGATACAA
** * *
3331839 ATGAGGGTTTTAGGATTTTTTAAGCGACTGCCAACAAATATATCGATGTATTCATTTGATGTATC
1 ATGAGGGTTTTAGGATTTTTTAAGCGACTGCCAACAAATATATCGATACATTCATGTAATGTATC
3331904 GATACATTGCGTATTATTTCGATACATTTTGATATGTATTGATACAA
66 GATACATTGCG---TA-TT--AT--A---TG-----TATTGATACAA
* * * * ** *
3331951 ATGAGGGTTTTAGGATTTTCTAAGCTACTGCCAACAGATGTATCGATGTATTCATGTGATGTATC
1 ATGAGGGTTTTAGGATTTTTTAAGCGACTGCCAACAAATATATCGATACATTCATGTAATGTATC
*
3332016 TATACATTGCGTATTATAT
66 GATACATTGCGTATTATAT
3332035 CGATACATTT
Statistics
Matches: 162, Mismatches: 17, Indels: 29
0.78 0.08 0.14
Matches are distributed among these distances:
96 50 0.31
97 14 0.09
99 2 0.01
100 2 0.01
101 1 0.01
102 2 0.01
104 2 0.01
106 2 0.01
107 2 0.01
108 2 0.01
109 2 0.01
112 81 0.50
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (96 bp):
ATGAGGGTTTTAGGATTTTTTAAGCGACTGCCAACAAATATATCGATACATTCATGTAATGTATC
GATACATTGCGTATTATATGTATTGATACAA
Found at i:3331950 original size:112 final size:112
Alignment explanation
Indices: 3331779--3332135 Score: 545
Period size: 112 Copynumber: 3.1 Consensus size: 112
3331769 TTGTTAATCA
* * *
3331779 GATGTATCGATACATT-CATGTAATGTATCGATACATTGCGTATTATATGTATTGATACAAATGA
1 GATGTATCGATACATTGC--GTATTATATCGATACATT---T-TGATATGTATTGATACAAATGA
* * * * *
3331843 GGGTTTTAGGATTTTTTAAGCGACTGCCAACAAATATATCGATGTATTCATTT
60 GGGTTTTAGGATTTTCTAAGCTACTGCCAACAGATGTATCGATGTATTCATGT
*
3331896 GATGTATCGATACATTGCGTATTATTTCGATACATTTTGATATGTATTGATACAAATGAGGGTTT
1 GATGTATCGATACATTGCGTATTATATCGATACATTTTGATATGTATTGATACAAATGAGGGTTT
3331961 TAGGATTTTCTAAGCTACTGCCAACAGATGTATCGATGTATTCATGT
66 TAGGATTTTCTAAGCTACTGCCAACAGATGTATCGATGTATTCATGT
* *
3332008 GATGTATCTATACATTGCGTATTATATCGATACATTTTGATATGTATTGATACAAATTAGGGTTT
1 GATGTATCGATACATTGCGTATTATATCGATACATTTTGATATGTATTGATACAAATGAGGGTTT
*
3332073 TAGGATTTTCTAAGCTACTGCTAACAGATGTATCGATGTATTCATGT
66 TAGGATTTTCTAAGCTACTGCCAACAGATGTATCGATGTATTCATGT
3332120 GATGTATCGATACATT
1 GATGTATCGATACATT
3332136 CAATCTTAAA
Statistics
Matches: 225, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
112 192 0.85
113 1 0.00
116 15 0.07
117 16 0.07
118 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (112 bp):
GATGTATCGATACATTGCGTATTATATCGATACATTTTGATATGTATTGATACAAATGAGGGTTT
TAGGATTTTCTAAGCTACTGCCAACAGATGTATCGATGTATTCATGT
Found at i:3350830 original size:86 final size:86
Alignment explanation
Indices: 3350680--3350849 Score: 322
Period size: 86 Copynumber: 2.0 Consensus size: 86
3350670 GTTACAATGT
* *
3350680 CATGATTCTCTGAAGTTGCAGCTAATTGCTTCCACTGATCAGGCTATTACTTGCTAGGTTAGTGG
1 CATGATTCTCCGAAGTTGCAGCTAATTGCTTCCACTGATCAGGCTATTACTTGCTAGGTAAGTGG
3350745 ACATTTTGTTAAACTGGCTGG
66 ACATTTTGTTAAACTGGCTGG
3350766 CATGATTCTCCGAAGTTGCAGCTAATTGCTTCCACTGATCAGGCTATTACTTGCTAGGTAAGTGG
1 CATGATTCTCCGAAGTTGCAGCTAATTGCTTCCACTGATCAGGCTATTACTTGCTAGGTAAGTGG
3350831 ACATTTTGTTAAACTGGCT
66 ACATTTTGTTAAACTGGCT
3350850 TTTAGTGCTA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (86 bp):
CATGATTCTCCGAAGTTGCAGCTAATTGCTTCCACTGATCAGGCTATTACTTGCTAGGTAAGTGG
ACATTTTGTTAAACTGGCTGG
Found at i:3354432 original size:17 final size:17
Alignment explanation
Indices: 3354410--3354468 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
3354400 CTTGATTAAG
3354410 TTCTTTCTTTTTTCTTT
1 TTCTTTCTTTTTTCTTT
*
3354427 TTCTTT-TTTTTT-TAT
1 TTCTTTCTTTTTTCTTT
*
3354442 TTCCTTC-TTTTTCTTAT
1 TTCTTTCTTTTTTCTT-T
*
3354459 TTCGTTCTTT
1 TTCTTTCTTT
3354469 CCCTAAGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
15 12 0.35
16 7 0.21
17 13 0.38
18 2 0.06
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (17 bp):
TTCTTTCTTTTTTCTTT
Found at i:3354469 original size:25 final size:25
Alignment explanation
Indices: 3354421--3354470 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3354411 TCTTTCTTTT
* **
3354421 TTCTTTTTCTTTTTTTTTTATTTCC
1 TTCTTTTTCTTATTTCGTTATTTCC
*
3354446 TTCTTTTTCTTATTTCGTTCTTTCC
1 TTCTTTTTCTTATTTCGTTATTTCC
3354471 CTAAGCATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (25 bp):
TTCTTTTTCTTATTTCGTTATTTCC
Found at i:3357633 original size:27 final size:26
Alignment explanation
Indices: 3357598--3357686 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
3357588 GTTTTAGAAA
*
3357598 AGGTTGTGATTGAGACTAGGTTTGTAT
1 AGGTTGTGATTGAGACT-GGTTTGTGT
*
3357625 AGGCTGTGATT--G---GGTTTGTGT
1 AGGTTGTGATTGAGACTGGTTTGTGT
*
3357646 AGGTTGTGATTGAGACTGGGTTTCTGT
1 AGGTTGTGATTGAGACT-GGTTTGTGT
3357673 AGGTTGTGATTGAG
1 AGGTTGTGATTGAG
3357687 TTTGAGTTGG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
21 18 0.35
23 1 0.02
25 1 0.02
27 32 0.62
ACGTcount: A:0.17, C:0.04, G:0.38, T:0.40
Consensus pattern (26 bp):
AGGTTGTGATTGAGACTGGTTTGTGT
Found at i:3357640 original size:21 final size:21
Alignment explanation
Indices: 3357616--3357657 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3357606 ATTGAGACTA
3357616 GGTTTGTATAGGCTGTGATTG
1 GGTTTGTATAGGCTGTGATTG
* *
3357637 GGTTTGTGTAGGTTGTGATTG
1 GGTTTGTATAGGCTGTGATTG
3357658 AGACTGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.02, G:0.40, T:0.45
Consensus pattern (21 bp):
GGTTTGTATAGGCTGTGATTG
Found at i:3357681 original size:48 final size:48
Alignment explanation
Indices: 3357598--3357690 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
3357588 GTTTTAGAAA
* *
3357598 AGGTTGTGATTGAGACTAGGTTTGTATAGGCTGTGATTGGGTTTGTGT
1 AGGTTGTGATTGAGACTAGGTTTCTATAGGCTGTGATTGAGTTTGTGT
* * *
3357646 AGGTTGTGATTGAGACTGGGTTTCTGTAGGTTGTGATTGAGTTTG
1 AGGTTGTGATTGAGACTAGGTTTCTATAGGCTGTGATTGAGTTTG
3357691 AGTTGGAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.16, C:0.04, G:0.38, T:0.42
Consensus pattern (48 bp):
AGGTTGTGATTGAGACTAGGTTTCTATAGGCTGTGATTGAGTTTGTGT
Found at i:3357701 original size:27 final size:27
Alignment explanation
Indices: 3357644--3357703 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3357634 TTGGGTTTGT
* * *
3357644 GTAGGTTGTGATTGAGACTGGGTTTCT
1 GTAGGTTGTGATTGAGACTGAGTTGCA
** *
3357671 GTAGGTTGTGATTGAGTTTGAGTTGGA
1 GTAGGTTGTGATTGAGACTGAGTTGCA
3357698 GTAGGT
1 GTAGGT
3357704 ATGGGTGTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.17, C:0.03, G:0.40, T:0.40
Consensus pattern (27 bp):
GTAGGTTGTGATTGAGACTGAGTTGCA
Found at i:3366221 original size:23 final size:23
Alignment explanation
Indices: 3366191--3366236 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3366181 TCTATAGTTG
3366191 AAAAGGTCCCCTTTTTCTCCTGT
1 AAAAGGTCCCCTTTTTCTCCTGT
* *
3366214 AAAAGGTCCCTTTTTTCTTCTGT
1 AAAAGGTCCCCTTTTTCTCCTGT
3366237 TTTTAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.13, T:0.43
Consensus pattern (23 bp):
AAAAGGTCCCCTTTTTCTCCTGT
Found at i:3371819 original size:42 final size:42
Alignment explanation
Indices: 3371764--3371882 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
3371754 TTCTTCTCTC
* *
3371764 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
3371806 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
3371848 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
3371883 TTGAGGGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:3371823 original size:12 final size:11
Alignment explanation
Indices: 3371797--3371872 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
3371787 TCTATTATCT
*
3371797 CTCCTGTCTCTC
1 CTCCTATCTC-C
3371809 CTCCTATCATCC
1 CTCCTATC-TCC
3371821 CTCCTATCT--
1 CTCCTATCTCC
*
3371830 CTACTATCT--
1 CTCCTATCTCC
*
3371839 CTCCTGTCTCTC
1 CTCCTATCTC-C
3371851 CTCCTATCATCC
1 CTCCTATC-TCC
*
3371863 CTCCTCTCTC
1 CTCCTATCTC
3371873 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:3371824 original size:24 final size:24
Alignment explanation
Indices: 3371788--3371873 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
3371778 CCTCCTCTCT
* *
3371788 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
3371812 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
3371833 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
3371854 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
3371874 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:3371848 original size:18 final size:18
Alignment explanation
Indices: 3371779--3371849 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
3371769 CCTGTCATCC
* *
3371779 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
3371797 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
3371819 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
3371839 CTCCTGTCTCT
1 CTCCTGTCTCT
3371850 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:3374559 original size:115 final size:115
Alignment explanation
Indices: 3374358--3374662 Score: 526
Period size: 115 Copynumber: 2.7 Consensus size: 115
3374348 GCTCACATAT
*
3374358 GATGGATTGGACAATGTGATAGAAGCACCAAGATTGCCTTAT-A-TGTTTGGGATAAATTTGTTG
1 GATGGATTGGACAATGTGATAGAAGCACCAAGATTGCCTTATGACTGTCTGGGATAAATTTGTTG
3374421 AAATGATTGTTCTTGTTTGAGGTGGTTTATGTTTATTTTTGTGTATGGAC
66 AAATGATTGTTCTTGTTTGAGGTGGTTTATGTTTATTTTTGTGTATGGAC
* *
3374471 GATGGGTTGGACAATGTGATAGAAGCAACAAGATTGCCTTATGACTGTCTGGGATAAATTTGTTG
1 GATGGATTGGACAATGTGATAGAAGCACCAAGATTGCCTTATGACTGTCTGGGATAAATTTGTTG
*
3374536 AAATGATTGTTCTTGTTTGAGGTGGTTTATGTTTATTTTTGTGTATGGAG
66 AAATGATTGTTCTTGTTTGAGGTGGTTTATGTTTATTTTTGTGTATGGAC
*
3374586 GATGGATTGGACAATGTGATAGAAGCACCAAGATTGCCTTATGACTGTCTAGGAT-AATCTTGTT
1 GATGGATTGGACAATGTGATAGAAGCACCAAGATTGCCTTATGACTGTCTGGGATAAAT-TTGTT
*
3374650 GAAGTGATTGTTC
65 GAAATGATTGTTC
3374663 ACTGCCCTCA
Statistics
Matches: 181, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
113 40 0.22
114 4 0.02
115 137 0.76
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.39
Consensus pattern (115 bp):
GATGGATTGGACAATGTGATAGAAGCACCAAGATTGCCTTATGACTGTCTGGGATAAATTTGTTG
AAATGATTGTTCTTGTTTGAGGTGGTTTATGTTTATTTTTGTGTATGGAC
Found at i:3375546 original size:2 final size:2
Alignment explanation
Indices: 3375539--3375571 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3375529 AAAAATCTGG
3375539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3375572 TTGGCCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3377660 original size:48 final size:48
Alignment explanation
Indices: 3377608--3377703 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
3377598 CTAGAGAATG
3377608 CACTAAGCATCCATTATACCCGTTATCACATTTTTTATCTTTTGAGAA
1 CACTAAGCATCCATTATACCCGTTATCACATTTTTTATCTTTTGAGAA
3377656 CACTAAGCATCCATTATACCCGTTATCACATTTTTTATCTTTTGAGAA
1 CACTAAGCATCCATTATACCCGTTATCACATTTTTTATCTTTTGAGAA
3377704 ATTTTCTCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (48 bp):
CACTAAGCATCCATTATACCCGTTATCACATTTTTTATCTTTTGAGAA
Found at i:3392466 original size:32 final size:32
Alignment explanation
Indices: 3392417--3392478 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3392407 AGAGCGATAT
*
3392417 ATTGTATCAATAAAACACTTATGTATCGATGC
1 ATTGTATCAATAAAACACTAATGTATCGATGC
* *
3392449 ATTGTATCGATACAACACTAATGTATCGAT
1 ATTGTATCAATAAAACACTAATGTATCGAT
3392479 ACAGTTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
ATTGTATCAATAAAACACTAATGTATCGATGC
Found at i:3393416 original size:49 final size:48
Alignment explanation
Indices: 3393342--3393606 Score: 205
Period size: 49 Copynumber: 5.6 Consensus size: 48
3393332 TAAAAATGCC
* * *
3393342 AATACGCTGATTCAAGGCCAACGATATTGGATTTAAGGATGAAGGTGCT
1 AATATGCTGATTCAAGGCCAGCGATATTGG-TTTAAGGATAAAGGTGCT
* * *
3393391 AATGTGCTGATTCAAGGCCAGCGATATT-G-----GGCT---TGTGCT
1 AATATGCTGATTCAAGGCCAGCGATATTGGTTTAAGGATAAAGGTGCT
* * * * * *
3393430 AATGTGCTGAGTCAAGGCCAGCGACATTAGTCTTAAAGATAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCGATATTGGT-TTAAGGATAAAGGTGCT
* *
3393479 AATATGCTGATTCAAGGCCAGCGATATTGGGCTT--GTGA-CAAGGTG-T
1 AATATGCTGATTCAAGGCCAGCGATATT-GGTTTAAG-GATAAAGGTGCT
* * * *
3393525 CAATATGCTGATTCAAGGCTAGCGATATTGGGTTTTAAAGATAAAAGTGCC
1 -AATATGCTGATTCAAGGCCAGCGATATT-GG-TTTAAGGATAAAGGTGCT
*
3393576 AATATGCTGGTTCAAGGCCAGCGATATTGGT
1 AATATGCTGATTCAAGGCCAGCGATATTGGT
3393607 CTTAGAAGAA
Statistics
Matches: 171, Mismatches: 27, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
39 31 0.18
40 1 0.01
42 3 0.02
46 2 0.01
47 36 0.21
48 6 0.04
49 60 0.35
50 32 0.19
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (48 bp):
AATATGCTGATTCAAGGCCAGCGATATTGGTTTAAGGATAAAGGTGCT
Found at i:3393496 original size:88 final size:90
Alignment explanation
Indices: 3393341--3393605 Score: 311
Period size: 88 Copynumber: 2.9 Consensus size: 90
3393331 TTAAAAATGC
* * * * * *
3393341 CAATACGCTGATTCAAGGCCAACGATATTGGATTTAAGGATGAAGGTGCTAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGG-TTTAAAGATAAAGGTGCCAATATGCTGATTCAA
3393406 GGCCAGCGATATTGGGCTTGTG-C-T
65 GGCCAGCGATATTGGGCTTGTGACGT
* * * *
3393430 -AATGTGCTGAGTCAAGGCCAGCGACATTAGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGT-TTAAAGATAAAGGTGCCAATATGCTGATTCAA
3393494 GGCCAGCGATATTGGGCTTGTGACAAGGTGT
65 GGCCAGCGATATTGGGCTTGTGAC-----GT
* * *
3393525 CAATATGCTGATTCAAGGCTAGCGATATTGGGTTTTAAAGATAAAAGTGCCAATATGCTGGTTCA
1 CAATATGCTGATTCAAGGCCAGCGATATT-GG-TTTAAAGATAAAGGTGCCAATATGCTGATTCA
3393590 AGGCCAGCGATATTGG
64 AGGCCAGCGATATTGG
3393606 TCTTAGAAGA
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
87 1 0.01
88 74 0.50
89 1 0.01
95 1 0.01
96 24 0.16
97 46 0.31
98 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (90 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGTTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGGCTTGTGACGT
Found at i:3393590 original size:50 final size:51
Alignment explanation
Indices: 3393425--3393605 Score: 205
Period size: 47 Copynumber: 3.7 Consensus size: 51
3393415 TATTGGGCTT
* * * * * *
3393425 GTGCTAATGTGCTGAGTCAAGGCCAGCGACATT-AG-TCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTTTAAAGATAAAG
* *
3393474 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGT---GA-CAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTTTAAAGATAAAG
* * *
3393521 GTGTCAATATGCTGATTCAAGGCTAGCGATATTGGG-TTTTAAAGATAAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTTTAAAGATAAAG
*
3393571 GTGCCAATATGCTGGTTCAAGGCCAGCGATATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
3393606 TCTTAGAAGA
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
46 3 0.03
47 37 0.34
48 2 0.02
49 31 0.28
50 35 0.32
51 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (51 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTTTAAAGATAAAG
Found at i:3393704 original size:28 final size:28
Alignment explanation
Indices: 3393622--3393704 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
3393612 AAGAAGACAT
3393622 CATCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CATCAAC-T-TGTGGGCTTTTGAAA-GGTTG
*
3393653 CATCAACTTGTGTGCTTTTG-AAGGTTG
1 CATCAACTTGTGGGCTTTTGAAAGGTTG
*
3393680 CCA-CTGACTTGTGGGC-TTTGAAAGG
1 -CATC-AACTTGTGGGCTTTTGAAAGG
3393705 GGTGCCGCGA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 10 0.22
28 17 0.37
29 11 0.24
30 1 0.02
31 7 0.15
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (28 bp):
CATCAACTTGTGGGCTTTTGAAAGGTTG
Found at i:3395226 original size:33 final size:33
Alignment explanation
Indices: 3395183--3395272 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 33
3395173 AAGTTACTAA
* *
3395183 TAATTATATAAATAATTAATAAATTTTATAATT
1 TAATTTTATAAATAATTAATAAATTTTAAAATT
**
3395216 TAATTTTATAAA-AA-TATATATTTTTTAAAATT
1 TAATTTTATAAATAATTA-ATAAATTTTAAAATT
*
3395248 TAATCTTTACAAAT--TTAATAAATTT
1 TAAT-TTTATAAATAATTAATAAATTT
3395273 CTTTTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
31 2 0.04
32 24 0.52
33 20 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (33 bp):
TAATTTTATAAATAATTAATAAATTTTAAAATT
Found at i:3396128 original size:22 final size:21
Alignment explanation
Indices: 3396093--3396133 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
3396083 ATAATTTCAA
3396093 TAATTAAAAATATA-AAAATT
1 TAATTAAAAATATATAAAATT
3396113 TAATATAATAAATATATAAAA
1 TAAT-TAA-AAATATATAAAA
3396134 GCCAAAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 7 0.39
23 4 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAATTAAAAATATATAAAATT
Found at i:3396796 original size:13 final size:13
Alignment explanation
Indices: 3396778--3396802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3396768 ACACCAAGTA
3396778 TGTATCGATACAT
1 TGTATCGATACAT
3396791 TGTATCGATACA
1 TGTATCGATACA
3396803 ACAAAAAATT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3403152 original size:20 final size:20
Alignment explanation
Indices: 3403109--3403155 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
3403099 AAATCTTTTG
3403109 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3403130 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3403150 CAAAAT
1 CAAAAT
3403156 CAGCCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3405581 original size:13 final size:13
Alignment explanation
Indices: 3405563--3405589 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3405553 TACACCAAGT
3405563 ATGTATCGATACA
1 ATGTATCGATACA
3405576 ATGTATCGATACA
1 ATGTATCGATACA
3405589 A
1 A
3405590 CAAAAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3406517 original size:24 final size:24
Alignment explanation
Indices: 3406485--3406534 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3406475 ACAGTAGTTG
*
3406485 ATAATAATTTTA-ATAATTAAAAAT
1 ATAAAAATTTTATATAA-TAAAAAT
*
3406509 ATAAAAATTTTATATAATAAATAT
1 ATAAAAATTTTATATAATAAAAAT
3406533 AT
1 AT
3406535 CAAAGCTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAAAAATTTTATATAATAAAAAT
Found at i:3407613 original size:2 final size:2
Alignment explanation
Indices: 3407606--3407635 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3407596 TTGACTTACC
3407606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3407636 GTAAACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3416526 original size:23 final size:22
Alignment explanation
Indices: 3416495--3416543 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
3416485 ATAGATTCAT
*
3416495 AAAAGAAAAGC-AAGAATGAAAGA
1 AAAAGAAAA-CAAAGAAAGAAA-A
*
3416518 AAAGGAAAACAAAGAAAGAAAA
1 AAAAGAAAACAAAGAAAGAAAA
3416540 AAAA
1 AAAA
3416544 ACTTTGGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (22 bp):
AAAAGAAAACAAAGAAAGAAAA
Found at i:3417699 original size:2 final size:2
Alignment explanation
Indices: 3417694--3417719 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3417684 ACAACTCAAT
3417694 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3417720 AATTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3418433 original size:14 final size:16
Alignment explanation
Indices: 3418405--3418436 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3418395 GTTAAAATTT
3418405 AAAATTATACTTTGAA
1 AAAATTATACTTTGAA
3418421 AAAATTA-AC-TTGAA
1 AAAATTATACTTTGAA
3418435 AA
1 AA
3418437 TTGTCTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAATTATACTTTGAA
Found at i:3418657 original size:151 final size:152
Alignment explanation
Indices: 3418480--3418755 Score: 441
Period size: 151 Copynumber: 1.8 Consensus size: 152
3418470 CTTAGAAAAT
3418480 TAAATTTAAGAAATTATGACATAAATTTAAGCCTTTTGAAAAT-TTTGAAGTGATTTTAGAT-AT
1 TAAATTTAAGAAATTATGACATAAATTTAAGCCTTTT-AAAATCTTTGAAGTGATTTTAGATAAT
* * * * *
3418543 TTGTTTGTACAATTTAAATTGTTTAATATT-TATAGTTTTAATATTTTTACGAGTTATAAGAAAT
65 TTGTTTATACAATTTAAATTATTTAATATTCGATAGTTTTAATATCTTTACAAGTTATAAGAAAT
3418607 ACTTAAAAAATTAAATTTAACTA
130 ACTTAAAAAATTAAATTTAACTA
** *
3418630 TAAATATTAAGAAATTATGGTATAAATTTAAGTCTTTTAAAATCTTTGAAGTGATTTTAGATAAT
1 TAAAT-TTAAGAAATTATGACATAAATTTAAGCCTTTTAAAATCTTTGAAGTGATTTTAGATAAT
3418695 TTGTTTATACAATTTAAATTATTTAATATTCGATAGTTTTAATATCTTTACAAGTTATAAG
65 TTGTTTATACAATTTAAATTATTTAATATTCGATAGTTTTAATATCTTTACAAGTTATAAG
3418756 TAAAAATATA
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
150 10 0.09
151 47 0.41
152 30 0.26
153 27 0.24
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (152 bp):
TAAATTTAAGAAATTATGACATAAATTTAAGCCTTTTAAAATCTTTGAAGTGATTTTAGATAATT
TGTTTATACAATTTAAATTATTTAATATTCGATAGTTTTAATATCTTTACAAGTTATAAGAAATA
CTTAAAAAATTAAATTTAACTA
Found at i:3419302 original size:15 final size:16
Alignment explanation
Indices: 3419271--3419305 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3419261 ATGATCGATC
*
3419271 AGAAATAAAAGTGAAA
1 AGAAAAAAAAGTGAAA
3419287 AGAAAAAAAAGT-AAA
1 AGAAAAAAAAGTGAAA
3419302 AGAA
1 AGAA
3419306 TATATCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (16 bp):
AGAAAAAAAAGTGAAA
Found at i:3419616 original size:16 final size:15
Alignment explanation
Indices: 3419591--3419637 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
3419581 ATATATAATT
*
3419591 TTTCAATTTTCTTTC
1 TTTCAATTTTCTATC
3419606 TTTCAAATTTTCTATC
1 TTTC-AATTTTCTATC
*
3419622 TTTCGATTATTCTATC
1 TTTCAATT-TTCTATC
3419638 CACCCAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTCAATTTTCTATC
Found at i:3419749 original size:2 final size:2
Alignment explanation
Indices: 3419742--3419769 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3419732 AAATCACTAC
3419742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3419770 CAGAACACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3422810 original size:76 final size:76
Alignment explanation
Indices: 3422612--3422948 Score: 354
Period size: 76 Copynumber: 4.4 Consensus size: 76
3422602 CAATCTTTCA
* * * * * *
3422612 TCTCGGGGATACTCTAACCCTATCAATTCCGAGGGGATACTCCAACCCCGTTTTTATTTTCAAAA
1 TCTCGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAA
3422677 TATTAAA-TTT
66 TATTAAATTTT
** * * * *
3422687 TCTCAAGGATACTCAAATCCTATTATTTTCGAGGGAATACTCTAACCCCATTTTTATTTCCAAAA
1 TCTCGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAA
*
3422752 T-TATGAATTTT
66 TAT-TAAATTTT
* * * * *
3422763 TTTCGGGGATACTCCAACCCTGTTATTTTCGAGGAGATACTCCAACCCCGTTTTTATTTTCAAAA
1 TCTCGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAA
3422828 TATTAAATTTT
66 TATTAAATTTT
* ** * * * * * * *
3422839 CATCTTGGGGATACTCTGACCCCATCAATTCCGAGGGGATACTCCAACCCTATTTTTAGTTCTAA
1 --TCTCGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAA
3422904 AATATTAAATTTT
64 AATATTAAATTTT
* **
3422917 TCTCGGGGGTACTCCAACCCCGTTATTTTCGA
1 TCTCGGGGATACTCCAACCCTATTATTTTCGA
3422949 ACAGACACTT
Statistics
Matches: 210, Mismatches: 47, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
74 1 0.00
75 58 0.28
76 89 0.42
77 1 0.00
78 61 0.29
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (76 bp):
TCTCGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAA
TATTAAATTTT
Found at i:3422817 original size:26 final size:25
Alignment explanation
Indices: 3422760--3422817 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 25
3422750 AATTATGAAT
*
3422760 TTTTTTCGGGGATACTCCAACCCTG
1 TTTTTTCGGGGATACTCCAACCCCG
3422785 TTATTTTCGAGGAGATACTCCAACCCCG
1 TT-TTTTCG-GG-GATACTCCAACCCCG
3422813 TTTTT
1 TTTTT
3422818 ATTTTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 6 0.21
27 5 0.17
28 16 0.55
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (25 bp):
TTTTTTCGGGGATACTCCAACCCCG
Done.