Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 15 of 16
Found at i:2339114 original size:165 final size:163
Alignment explanation
Indices: 2338350--2339121 Score: 739
Period size: 165 Copynumber: 4.7 Consensus size: 163
2338340 ATGGGAGTTT
* * * * ** ** * **
2338350 AATAACAATATTAGATAAATTTAAAAAATTTTAAATTGAGAAAAACCCCCCGAAA-ATATTTACA
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAA-TCCCCGAAAGA-ATTTATG
* * * *
2338414 GAGTAGAAAA-TTTAATTTTTC-AAAATAGAGGCA-TTTCAAAGAAAAAATTCAAAACTCAT-AA
64 GAGTAGAAAACTTCAGTGTTTCGAAAATAGA-GAATTTTC-AAGAAAAAATTCAAAACT-ATGAA
* * * *
2338475 ATATAAATTAATTTTTCAAAATTAATTTAATATAAATTA
126 A-ATGAATGAATTTTTAAAAACTAATTTAATATAAATTA
*
2338514 AATAATAATATTTGATAAATTTTAAAAATTAAAAA-CTAAGAAAAATCCCCCCGAAAGAATTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATC-AAGAAAAAT--CCCCGAAAGAATTTAT
* * * * *
2338578 GGAGTAAAAAAC-TCTGTGTTTCGAAAGTAGGAAAATTTTTAAG-AAAAATTCAAAACTAATGAA
63 GGAGTAGAAAACTTCAGTGTTTCGAAAATA-GAGAATTTTCAAGAAAAAATTCAAAACT-ATGAA
*
2338641 AATGAATGAATTTTTAAAAACTAATTTAATATGAATTA
126 AATGAATGAATTTTTAAAAACTAATTTAATATAAATTA
* *
2338679 AATAATAGTATTTGATGAATTTTAAAAATTAAAAATAAAGAAAAATCCCTCGAAAGAATTTATGG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCC-CGAAAGAATTTATGG
* * * *
2338744 AGTAAAAAACTTC-GTGTTTCGAAAATAAGAAAATTTTCAAGAAAAAATTCAAAGCTCGTGAAAA
65 AGTAGAAAACTTCAGTGTTTCGAAAAT-AGAGAATTTTCAAGAAAAAATTCAAAACT-ATGAAAA
* *
2338808 TGAATGCATTTTTAAAAACTAATTTAATATGAATTA
128 TGAATGAATTTTTAAAAACTAATTTAATATAAATTA
* * * *
2338844 AATAATAGTATTTGATGAATTTAAAAAATTAAAAACCAAGAAAAATCACCGCGAAAAAATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATC-CC-CGAAAGAATTTATG
* * * * *
2338909 GAGTAG-AAAC-TCTGTGTTTAGGAAATA-AGGAAAGTTTCAAGAAAATATTCAAAACTTATTG-
64 GAGTAGAAAACTTCAGTGTTTCGAAAATAGA-G-AATTTTCAAGAAAAAATTCAAAAC-TA-TGA
* *
2338970 AAATGAATGAATTTTTGAAAACTAATTTAATATAAATGA
125 AAATGAATGAATTTTTAAAAACTAATTTAATATAAATTA
* * * ** *
2339009 AATAATAATATTTGATGAATTTTAAAAATTGAAAATCGATAAAAATCTTCCTTAAA-ATGTTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATC--CCCGAAAGA-ATTTAT
* *
2339073 GGAGTAGAAAACTTCAAT-TTTTGAAAATGAGAGAA-TTTCAAGAAAAAAT
63 GGAGTAGAAAACTTCAGTGTTTCGAAAAT-AGAGAATTTTCAAGAAAAAAT
2339122 AAAAAATTCA
Statistics
Matches: 516, Mismatches: 66, Indels: 51
0.82 0.10 0.08
Matches are distributed among these distances:
163 4 0.01
164 90 0.17
165 359 0.70
166 52 0.10
167 10 0.02
168 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (163 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCGAAAGAATTTATGGA
GTAGAAAACTTCAGTGTTTCGAAAATAGAGAATTTTCAAGAAAAAATTCAAAACTATGAAAATGA
ATGAATTTTTAAAAACTAATTTAATATAAATTA
Found at i:2341145 original size:74 final size:74
Alignment explanation
Indices: 2340962--2341693 Score: 676
Period size: 74 Copynumber: 9.9 Consensus size: 74
2340952 AAAGGTGTCC
* * * ** *
2340962 TGCT-TTTCGAGGACTAAAAAAGATAAATGATGCCACTAGCTTGTATGGGCTTCAAAAAAAAAAA
1 TGCTCTTT-GAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTT--TGAAGAAAAA
*
2341026 GAAAAGGCATCA
63 GAAAAGGCATCT
* * * *
2341038 TGCTCTTTAAGGACT-AAGAAAGATAAATAATGCCACCAACTTATGTGGGCTTTGAAGAAAAAGA
1 TGCTCTTTGAGGACTGAA-AAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGA
* *
2341102 TAAGGCGTCT
65 AAAGGCATCT
* * * * *
2341112 TGCTCTTTGAGGATTGAAAAAAATAAAGGATGCCACCAGTTTGTGTGGGCTTTGAAAAAAAAAGA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTG-AAGAAAAAGA
* *
2341177 TAAGGCATCC
65 AAAGGCATCT
* * * * * * *
2341187 TACTCTTTGAGGACTG-AAAACATAAATGATGCCACCAGCTTATGTGAGATTTGAAGAAAAATAT
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
2341251 AAGGCATCT
66 AAGGCATCT
* * * * *
2341260 TGTTCTTTGAGGACTGAAAATGATAGATAATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAA-AA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
*
2341324 AA-GCATCC
66 AAGGCATCT
* * * * ** * *
2341332 TACTCTTTAAAGACTGAAAAAATATAAATGATGCCAATAGCTT-TGT-GGATTTGATGAAAAAGA
1 TGCTCTTTGAGGACTG-AAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAG-
* *
2341395 TAAAATG--TCA
64 -AAAAGGCATCT
* * *
2341405 TGCTCTTGGAGAACTGAAAAGGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
*
2341470 AAAGCATCT
66 AAGGCATCT
* * * * * * * *
2341479 TGCTCTTTGAGGATTGACAAGGATAAACGATACCACTAGCTTGTGTGGGTTTTGAAGACAAAGAA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
2341544 AAGGCATCT
66 AAGGCATCT
** * *
2341553 TATTCTTTGAGGAATGAAAAAGATAAA-CATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
** *
2341617 AAAACATCC
66 AAGGCATCT
* * * * * * * * *
2341626 TGCTCCTTGAGGATTGATAAAGATAAATGGTGCAACTAGCTTATTTGGGCTTTAAAGAAAAA-AA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
2341690 AAGG
66 AAGG
2341694 TATCCTATCC
Statistics
Matches: 531, Mismatches: 110, Indels: 33
0.79 0.16 0.05
Matches are distributed among these distances:
71 12 0.02
72 47 0.09
73 134 0.25
74 260 0.49
75 36 0.07
76 39 0.07
77 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (74 bp):
TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAA
AAGGCATCT
Found at i:2341219 original size:148 final size:149
Alignment explanation
Indices: 2340962--2341687 Score: 725
Period size: 147 Copynumber: 4.9 Consensus size: 149
2340952 AAAGGTGTCC
* * * **
2340962 TGCT-TTTCGAGGACTAAAAAAGATAAATGATGCCACTAGCTTGTATGGGCTTCAAAAAAAAAAA
1 TGCTCTTT-GAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTT-TGAAAAAAAAA
* * * * * * * * *
2341026 GAAAAGGCATCATGCTCTTTAAGGACTAAGAAAGATAAATAATGCCACCAACTTATGTGGGCTTT
64 GAAAAAGCATCCTGCTCTTTGAGGACTGACAAAGATAAATGATGCCACTAGCTTATGTGGGATTT
*
2341091 GAAGAAAAAGATAAGGCGTCT
129 GAAGAAAAAGATAAGGCATCT
* * * *
2341112 TGCTCTTTGAGGATTGAAAAAAATAAAGGATGCCACCAGTTTGTGTGGGCTTTGAAAAAAAAAGA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAAGA
* * * * * *
2341177 TAAGGCATCCTACTCTTTGAGGACTGA-AAACATAAATGATGCCACCAGCTTATGTGAGATTTGA
66 AAAAGCATCCTGCTCTTTGAGGACTGACAAAGATAAATGATGCCACTAGCTTATGTGGGATTTGA
*
2341241 AGAAAAATATAAGGCATCT
131 AGAAAAAGATAAGGCATCT
* * * * *
2341260 TGTTCTTTGAGGACTGAAAATGATAGATAATGCCACCAGCTTGTGTGGGCTTT--AAAGAAAA-A
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAAGA
* * * * * *
2341322 AAAAGCATCCTACTCTTTAAAGACTGAAAAAATATAAATGATGCCAATAGCTT-TGT-GGATTTG
66 AAAAGCATCCTGCTCTTTGAGGACTG-ACAAAGATAAATGATGCCACTAGCTTATGTGGGATTTG
* **** *
2341385 ATGAAAAAGATAAAATGTCA
130 AAGAAAAAGATAAGGCATCT
* * * *
2341405 TGCTCTTGGAGAACTGAAAAGGATAAATGATGCCACCAGCTTGTGTGGGCTTTG-AAGAAAAAGA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAAGA
* * * * * * *
2341469 AAAAGCATCTTGCTCTTTGAGGATTGACAAGGATAAACGATACCACTAGCTTGTGTGGGTTTTGA
66 AAAAGCATCCTGCTCTTTGAGGACTGACAAAGATAAATGATGCCACTAGCTTATGTGGGATTTGA
* *
2341534 AGACAAAGAAAAGGCATCT
131 AGAAAAAGATAAGGCATCT
** * * *
2341553 TATTCTTTGAGGAATGAAAAAGATAAA-CATGCCACCAGCTTGTGTGGGCTTTG-AAGAAAAAGA
1 TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAAGA
* * * * * * * * *
2341616 AAAAACATCCTGCTCCTTGAGGATTGATAAAGATAAATGGTGCAACTAGCTTATTTGGGCTTTAA
66 AAAAGCATCCTGCTCTTTGAGGACTGACAAAGATAAATGATGCCACTAGCTTATGTGGGATTTGA
2341681 AGAAAAA
131 AGAAAAA
2341688 AAAAGGTATC
Statistics
Matches: 475, Mismatches: 94, Indels: 17
0.81 0.16 0.03
Matches are distributed among these distances:
145 89 0.19
146 37 0.08
147 139 0.29
148 133 0.28
149 33 0.07
150 41 0.09
151 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (149 bp):
TGCTCTTTGAGGACTGAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAAGA
AAAAGCATCCTGCTCTTTGAGGACTGACAAAGATAAATGATGCCACTAGCTTATGTGGGATTTGA
AGAAAAAGATAAGGCATCT
Found at i:2341654 original size:293 final size:293
Alignment explanation
Indices: 2340978--2341687 Score: 766
Period size: 293 Copynumber: 2.4 Consensus size: 293
2340968 TCGAGGACTA
* * * * *
2340978 AAAAAGATAAATGATGCCACTAGCTTGTATGGGCTTCAAAAAAAAAAAGAAAAGGCATCATGCTC
1 AAAAAGATAAA--ATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAAAA-AAAA--CATCCTGCTC
* ** * * **
2341043 TTTAAGGACT-AAGAAAGATAAATAATGCCACCAACTTATGTGGGCTTTGAAGAAAAAGATAAGG
61 TTTAAGGACTGAA-AAAGATAAATGATGCCAATAGCTTATGTGGGATTTGAAGAAAAAGATAAAA
* * * * *
2341107 CGTCTTGCTCTTTGAGGATTGAAAAAAATAAAGGATGCCACCAGTTTGTGTGGGCTTTGAAAAAA
125 CGTCATGCTCTTGGAGAACTGAAAAAAATAAAGGATGCCACCAGCTTGTGTGGGCTTTGAAAAAA
* * * *
2341172 AAAGATAAGGCATCCTACTCTTTGAGGACTGAAAACATAAATGATGCCACCAGCTTATGTGAGAT
190 AAAGAAAAAGCATCCTACTCTTTGAGGACTGAAAACATAAACGATACCACCAGCTTATGTGAGAT
* * * *
2341237 TTGAAGAAAAATATAAGGCATCTTGTTCTTTGAGGACTG
255 TTGAAGAAAAAGAAAAGGCATCTTATTCTTTGAGGAATG
* * *
2341276 AAAATGATAGATAATGCCACCAGCTTGTGTGGGCTTTAAAG-AAAAAAAAAGCATCCTACTCTTT
1 AAAAAGATA-A-AATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAAAAAAAACATCCTGCTCTTT
* * * *
2341340 AAAGACTGAAAAAATATAAATGATGCCAATAGCTT-TGT-GGATTTGATGAAAAAGATAAAATGT
64 AAGGACTG-AAAAAGATAAATGATGCCAATAGCTTATGTGGGATTTGAAGAAAAAGATAAAACGT
** * *
2341403 CATGCTCTTGGAGAACTGAAAAGGATAAATGATGCCACCAGCTTGTGTGGGCTTTG-AAGAAAAA
128 CATGCTCTTGGAGAACTGAAAAAAATAAAGGATGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAA
* * * ** * * * *
2341467 GAAAAAGCATCTTGCTCTTTGAGGATTGACAAGGATAAACGATACCACTAGCTTGTGTGGGTTTT
193 GAAAAAGCATCCTACTCTTTGAGGACTGA-AAACATAAACGATACCACCAGCTTATGTGAGATTT
*
2341532 GAAGACAAAGAAAAGGCATCTTATTCTTTGAGGAATG
257 GAAGAAAAAGAAAAGGCATCTTATTCTTTGAGGAATG
* *
2341569 AAAAAGATAAACATGCCACCAGCTTGTGTGGGCTTTGAAGAAAAAGAAAAAACATCCTGCTCCTT
1 AAAAAGATAAA-ATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAA-AAAAAACATCCTGCTCTTT
* * * * * * *
2341634 GAGGATTGATAAAGATAAATGGTG-CAACTAGCTTATTTGGGCTTTAAAGAAAAA
64 AAGGACTGAAAAAGATAAATGATGCCAA-TAGCTTATGTGGGATTTGAAGAAAAA
2341688 AAAAGGTATC
Statistics
Matches: 340, Mismatches: 61, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
291 1 0.00
292 62 0.18
293 158 0.46
294 43 0.13
295 31 0.09
296 5 0.01
297 6 0.02
298 32 0.09
299 1 0.00
300 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (293 bp):
AAAAAGATAAAATGCCACCAGCTTGTGTGGGCTTTAAAGAAAAAAAAAAACATCCTGCTCTTTAA
GGACTGAAAAAGATAAATGATGCCAATAGCTTATGTGGGATTTGAAGAAAAAGATAAAACGTCAT
GCTCTTGGAGAACTGAAAAAAATAAAGGATGCCACCAGCTTGTGTGGGCTTTGAAAAAAAAAGAA
AAAGCATCCTACTCTTTGAGGACTGAAAACATAAACGATACCACCAGCTTATGTGAGATTTGAAG
AAAAAGAAAAGGCATCTTATTCTTTGAGGAATG
Found at i:2341797 original size:113 final size:114
Alignment explanation
Indices: 2341595--2341805 Score: 273
Period size: 113 Copynumber: 1.9 Consensus size: 114
2341585 CACCAGCTTG
* *
2341595 TGTGGGCTTTGAAGAAAAAGAAAAAACATCCTGCTCCTTGAGGATTGATAAAGATAAATGGTGCA
1 TGTGGGCTTTGAAGAAAAAGAAAAAACATCATGCTCCTTGAGGATTGATAAAGATAAATGATGCA
* * **
2341660 ACTAGCTTATTTGGGCTTTAAAGAAAAA-AAAAGGTATCCTATCCTTTT
66 ACCAGCTTATGTAAGCTTTAAAGAAAAAGAAAAGGTATCCTATCCTTTT
* * ** *
2341708 TGTGGTCTTTGAAGAAAAAGAAAAGATGTCATGCTCTTTGAGGATTGA-AAATGATAAATGATGC
1 TGTGGGCTTTGAAGAAAAAGAAAAAACATCATGCTCCTTGAGGATTGATAAA-GATAAATGATGC
* * *
2341772 CACCAGCTTGTGTAAGCTTTGAAGAAAAAGAAAA
65 AACCAGCTTATGTAAGCTTTAAAGAAAAAGAAAA
2341806 AACATTCTAC
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
112 3 0.04
113 75 0.91
114 4 0.05
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (114 bp):
TGTGGGCTTTGAAGAAAAAGAAAAAACATCATGCTCCTTGAGGATTGATAAAGATAAATGATGCA
ACCAGCTTATGTAAGCTTTAAAGAAAAAGAAAAGGTATCCTATCCTTTT
Found at i:2341963 original size:74 final size:73
Alignment explanation
Indices: 2341705--2341980 Score: 288
Period size: 74 Copynumber: 3.7 Consensus size: 73
2341695 ATCCTATCCT
* ** * * * *
2341705 TTTTGTG-GTCTTTGAAGAAAAAGAAAAGATGTCA-TGCTCTTTGAGGATTGAAAATGATAAATG
1 TTTTGTGTG-CTTCGAAGAAAAAGAAAAGACAT-ATTACTTTTTGAGGACT-AAAAAGATAAATG
*
2341768 ATGCCACCAGC
63 ATGCCACTAGC
* ** * * * *
2341779 TTGTGTAAGCTTTGAAGAAAAAGAAAAAACAT-TCTACTTTTTAAGGATTGAAAAAGATAAATGA
1 TTTTGTGTGCTTCGAAGAAAAAGAAAAGACATAT-TACTTTTTGAGGACT-AAAAAGATAAATGA
2341843 TGCCACTAGC
64 TGCCACTAGC
* * *
2341853 TTTTATGTGCTTCGAAGAAAAAGAAAAGCCAAATTACTTTTTGAGGACTAACAAAGATAAATGAT
1 TTTTGTGTGCTTCGAAGAAAAAGAAAAGACATATTACTTTTTGAGGACTAA-AAAGATAAATGAT
2341918 GCCACTAGC
65 GCCACTAGC
* * *
2341927 TTTTGTGTGCTTCGAAGAAAAAGAAAAGGCGTATTACTCTTTGAGGACTAAAAA
1 TTTTGTGTGCTTCGAAGAAAAAGAAAAGACATATTACTTTTTGAGGACTAAAAA
2341981 ATGTATTAAA
Statistics
Matches: 172, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
73 5 0.03
74 165 0.96
75 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (73 bp):
TTTTGTGTGCTTCGAAGAAAAAGAAAAGACATATTACTTTTTGAGGACTAAAAAGATAAATGATG
CCACTAGC
Found at i:2342084 original size:74 final size:71
Alignment explanation
Indices: 2341991--2342279 Score: 344
Period size: 71 Copynumber: 4.0 Consensus size: 71
2341981 ATGTATTAAA
* *
2341991 GAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTG
1 GAAAAAG-AAAAGCGTCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTA
2342056 GGCTTTG
65 GGCTTTG
* * * * *
2342063 AAGGAAAAGAAAAGGTGTCTTGCTCTTTGATGACTAAAAAAGATAAATGTTGCTACCAGCTTGTG
1 --GAAAAAGAAAA-GCGTCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTG
2342128 TAGGCTTTG
63 TAGGCTTTG
* * * * * *
2342137 GAAAAAGAAAAACATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCTCTAGCTTGTGCAG
1 GAAAAAGAAAAGCGTCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTAG
2342202 GCTTTG
66 GCTTTG
* *** * * *
2342208 GAAGAAGAAAATGCGTCCCACTCTTTGAGGACTAAAAAAGGTAGATGATGCCACTAGCTTGTGTA
1 GAAAAAGAAAA-GCGTCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTA
*
2342273 GCCTTTG
65 GGCTTTG
2342280 AAGAAAAAAA
Statistics
Matches: 183, Mismatches: 30, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
71 60 0.33
72 59 0.32
73 4 0.02
74 60 0.33
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (71 bp):
GAAAAAGAAAAGCGTCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTAG
GCTTTG
Found at i:2342105 original size:270 final size:264
Alignment explanation
Indices: 2341739--2342246 Score: 585
Period size: 270 Copynumber: 1.9 Consensus size: 264
2341729 AAAGATGTCA
* * *
2341739 TGCTCTTTGAGGATTGAAAATGATAAATGATGCCACCAGCTTGTGTAAGCTTTGAAGAAAAAGAA
1 TGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTAAGCTTTGAAGAAAAAG-A
* * * *
2341804 AAAACATTCTACTTTTTAAGGATTGAAAAAGATAAATGATGCCACTAGCTT-T-TATGTGCTTCG
65 AAAACATTCTACTCTTTAAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTA-G-GCTTCG
* * *
2341867 AAGAAAAAGAAAAGCCAAATTACTTTTTGAGGACT-AACAAAGATAAATGATGCCACTAGCTTTT
128 --GAAAAAGAAAA-ACAAATTACTCTTTGAGGACTGAA-AAAGATAAATGATGCCACTAGCTTGT
* **
2341931 G-TGTGCTTCGAAGAAAAAGAAAAGGCGTATTACTCTTTGAGGACTAAAAAATGTATTAAAGAAA
189 GCAG-GCTTCG--GAAAAAGAAAAGGCGTACCACTCTTTGAGGACTAAAAAATGTATTAAAGAAA
2341995 AAGAAAAAGCATCT
251 AAGAAAAAGCATCT
** *
2342009 TGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTGGGCTTTGAAGGAAAAG-A
1 TGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTAAGCTTTGAAGAAAAAGAA
** * * * * * *
2342073 AAAGGTGTCTTGCTCTTTGATGACTAAAAAAGATAAATGTTGCTACCAGCTTGTGTAGGCTTTGG
66 AAACAT-TC-TACTCTTTAAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTAGGCTTCGG
** * *
2342138 AAAAAGAAAAACATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCTCTAGCTTGTGCAGG
129 AAAAAGAAAAACAAATTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTTGTGCAGG
* * * *
2342203 CTTTGGAAGAAGAAAATGCGTCCCACTCTTTGAGGACTAAAAAA
194 CTTCGGAAAAAGAAAAGGCGTACCACTCTTTGAGGACTAAAAAA
2342247 GGTAGATGAT
Statistics
Matches: 200, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
265 34 0.17
267 46 0.23
268 19 0.09
269 2 0.01
270 95 0.47
271 2 0.01
272 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (264 bp):
TGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTAAGCTTTGAAGAAAAAGAA
AAACATTCTACTCTTTAAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTAGGCTTCGGAA
AAAGAAAAACAAATTACTCTTTGAGGACTGAAAAAGATAAATGATGCCACTAGCTTGTGCAGGCT
TCGGAAAAAGAAAAGGCGTACCACTCTTTGAGGACTAAAAAATGTATTAAAGAAAAAGAAAAAGC
ATCT
Found at i:2342175 original size:145 final size:144
Alignment explanation
Indices: 2341991--2342279 Score: 384
Period size: 143 Copynumber: 2.0 Consensus size: 144
2341981 ATGTATTAAA
**
2341991 GAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTG
1 GAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGCA
* *** * * *
2342056 GGCTTT-GAAGGAAAAGAAAAGGTGTCTTGCTCTTTGATGACTAAAAAAGATAAATGTTGCTACC
66 GGCTTTGGAA-G--AAGAAAAGGCGTCCCACTCTTTGAGGACTAAAAAAGATAAATGATGCCACC
*
2342120 AGCTTGTGTAGGCTTTG
128 AGCTTGTGTAGCCTTTG
* * *
2342137 GAAAAAGAAAAA-CATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCTCTAGCTTGTGCA
1 GAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGCA
* * * *
2342201 GGCTTTGGAAGAAGAAAATGCGTCCCACTCTTTGAGGACTAAAAAAGGTAGATGATGCCACTAGC
66 GGCTTTGGAAGAAGAAAAGGCGTCCCACTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGC
2342266 TTGTGTAGCCTTTG
131 TTGTGTAGCCTTTG
2342280 AAGAAAAAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
143 56 0.45
145 54 0.43
146 15 0.12
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (144 bp):
GAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGCA
GGCTTTGGAAGAAGAAAAGGCGTCCCACTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGC
TTGTGTAGCCTTTG
Found at i:2342181 original size:71 final size:72
Alignment explanation
Indices: 2341991--2342279 Score: 332
Period size: 74 Copynumber: 4.0 Consensus size: 72
2341981 ATGTATTAAA
2341991 GAAAAAGAAAA-AGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGT
1 GAAAAAGAAAAGA-CATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGT
*
2342055 GGGCTTTG
65 AGGCTTTG
* *** * * *
2342063 AAGGAAAAGAAAAGGTGTCTTGCTCTTTGATGACTAAAAAAGATAAATGTTGCTACCAGCTTGTG
1 --GAAAAAGAAAAGACATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTG
2342128 TAGGCTTTG
64 TAGGCTTTG
* * * *
2342137 GAAAAAGAAAA-ACATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCTCTAGCTTGTGCA
1 GAAAAAGAAAAGACATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTA
2342201 GGCTTTG
66 GGCTTTG
* * *** * * *
2342208 GAAGAAGAAAATG-CGTCCCACTCTTTGAGGACTAAAAAAGGTAGATGATGCCACTAGCTTGTGT
1 GAAAAAGAAAA-GACATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGT
*
2342272 AGCCTTTG
65 AGGCTTTG
2342280 AAGAAAAAAA
Statistics
Matches: 182, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
71 60 0.33
72 59 0.32
74 63 0.35
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (72 bp):
GAAAAAGAAAAGACATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTGTA
GGCTTTG
Found at i:2342286 original size:145 final size:147
Alignment explanation
Indices: 2341989--2342287 Score: 392
Period size: 145 Copynumber: 2.1 Consensus size: 147
2341979 AAATGTATTA
2341989 AAGAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTG
1 AAGAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTG
** * *** * * *
2342054 TGGGCTTTGAAGGAAAAGAAAAGGTGTCTTGCTCTTTGATGACTAAAAAAGATAAATGTTGCTAC
66 CAGGCTTTGAAGG-AAAGAAAAGGCGTCCCACTCTTTGAGGACTAAAAAAGATAAATGATGCCAC
*
2342119 CAGCTTGTGTAGGCTTTG
130 CAGCTTGTGTAGCCTTTG
* * *
2342137 --GAAAAAGAAAAA-CATCTTGCTCTTTGAGGACTGAAAAAGATAAATGATGCCTCTAGCTTGTG
1 AAGAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTG
* * *
2342199 CAGGCTTTGGAA-G-AAGAAAATGCGTCCCACTCTTTGAGGACTAAAAAAGGTAGATGATGCCAC
66 CAGGCTTT-GAAGGAAAGAAAAGGCGTCCCACTCTTTGAGGACTAAAAAAGATAAATGATGCCAC
*
2342262 TAGCTTGTGTAGCCTTTG
130 CAGCTTGTGTAGCCTTTG
2342280 AAGAAAAA
1 AAGAAAAA
2342288 AATGTCCTAC
Statistics
Matches: 131, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
143 56 0.43
145 60 0.46
146 15 0.11
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (147 bp):
AAGAAAAAGAAAAAGCATCTTGCTCTTTGAGGACTAAAAAAGATAAATGATGCCACCAGCTTGTG
CAGGCTTTGAAGGAAAGAAAAGGCGTCCCACTCTTTGAGGACTAAAAAAGATAAATGATGCCACC
AGCTTGTGTAGCCTTTG
Found at i:2343326 original size:22 final size:23
Alignment explanation
Indices: 2343293--2343336 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2343283 CTAGTTCTCA
2343293 TTCTCTTTTTTGTTTG-TTTTTTG
1 TTCTCTTTTTTG-TTGATTTTTTG
2343316 TTCT-TTTTTTGTTGATTTTTT
1 TTCTCTTTTTTGTTGATTTTTT
2343337 TAAAGTGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 13 0.65
23 4 0.20
ACGTcount: A:0.02, C:0.07, G:0.11, T:0.80
Consensus pattern (23 bp):
TTCTCTTTTTTGTTGATTTTTTG
Found at i:2343334 original size:21 final size:23
Alignment explanation
Indices: 2343293--2343335 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
2343283 CTAGTTCTCA
*
2343293 TTCTCTTTTTTGTTTGTTTTTTG
1 TTCTCTTTTTTGTTTGATTTTTG
2343316 TTCT-TTTTTTG-TTGATTTTT
1 TTCTCTTTTTTGTTTGATTTTT
2343336 TTAAAGTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.02, C:0.07, G:0.12, T:0.79
Consensus pattern (23 bp):
TTCTCTTTTTTGTTTGATTTTTG
Found at i:2345196 original size:20 final size:19
Alignment explanation
Indices: 2345173--2345244 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
2345163 CACACCCAAA
*
2345173 TGTATCGATACATCTTGCTT
1 TGTATCGATACATCTT-CAT
*
2345193 TGTATCGATACATGTTCAT
1 TGTATCGATACATCTTCAT
* ***
2345212 AGTATCGATACATGGACAAT
1 TGTATCGATACATCTTC-AT
2345232 TGTATCGATACAT
1 TGTATCGATACAT
2345245 GAAACTGGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATCTTCAT
Found at i:2345245 original size:20 final size:19
Alignment explanation
Indices: 2345192--2345245 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
2345182 ACATCTTGCT
**
2345192 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGGACA
*
2345211 TAGTATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
2345231 TTGTATCGATACATG
1 TTGTATCGATACATG
2345246 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:2351936 original size:22 final size:21
Alignment explanation
Indices: 2351901--2351943 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
2351891 ATTTGAAAAT
2351901 AAATTTTTACATAGGGGGAGA
1 AAATTTTTACATAGGGGGAGA
*
2351922 AAATCTTTTATATAGGGGGAGA
1 AAAT-TTTTACATAGGGGGAGA
2351944 TAACCGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (21 bp):
AAATTTTTACATAGGGGGAGA
Found at i:2351953 original size:22 final size:22
Alignment explanation
Indices: 2351906--2351964 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2351896 AAAATAAATT
* *
2351906 TTTACATAGGGGGAGAAAATCT
1 TTTACATAGGGGGAGAAAACCG
* *
2351928 TTTATATAGGGGGAGATAACCG
1 TTTACATAGGGGGAGAAAACCG
2351950 TTT--A-AGGGGGAGAAA
1 TTTACATAGGGGGAGAAA
2351965 TTTTTTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 10 0.31
20 1 0.03
22 21 0.66
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (22 bp):
TTTACATAGGGGGAGAAAACCG
Found at i:2352624 original size:20 final size:19
Alignment explanation
Indices: 2352574--2352626 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
2352564 ACACACCAGA
**
2352574 TGTATCGATACATGTTCAT
1 TGTATCGATACATGGACAT
* *
2352593 TTTATTGATACATGGACAAT
1 TGTATCGATACATGGAC-AT
2352613 TGTATCGATACATG
1 TGTATCGATACATG
2352627 AAACTGGCAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGGACAT
Found at i:2352700 original size:33 final size:32
Alignment explanation
Indices: 2352655--2352723 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
2352645 CTATCATGAT
* *
2352655 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCAATACATGAG-A-AATGTATCGAGACA
2352688 TTGTATCAATACATGAAGAAATGTATCGAGACA
1 TTGTATCAATACATG-AGAAATGTATCGAGACA
2352721 TTG
1 TTG
2352724 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (32 bp):
TTGTATCAATACATGAGAAATGTATCGAGACA
Found at i:2356509 original size:51 final size:52
Alignment explanation
Indices: 2356390--2356524 Score: 186
Period size: 52 Copynumber: 2.6 Consensus size: 52
2356380 TCTAGAAAGA
* *
2356390 AAATATATCGATACATTTTTCATTATATTGATACATTCTGGGTTTTTGACCT
1 AAATGTATCGATACATTTTTCATTATATTGATACATTCTAGGTTTTTGACCT
* *
2356442 AAATGTATTGATACATTGTTT-ATTGTATTGATACATTCTAGG-TTTTGACCT
1 AAATGTATCGATACATT-TTTCATTATATTGATACATTCTAGGTTTTTGACCT
*
2356493 AAATGTATCGATACATTCTTCAATT-TATTGAT
1 AAATGTATCGATACATTTTTC-ATTATATTGAT
2356525 GCATGTAGGC
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
50 2 0.03
51 32 0.43
52 37 0.50
53 3 0.04
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.46
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTATATTGATACATTCTAGGTTTTTGACCT
Found at i:2357610 original size:13 final size:13
Alignment explanation
Indices: 2357592--2357617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2357582 ACAATTCTTC
2357592 TTGTATCGATACA
1 TTGTATCGATACA
2357605 TTGTATCGATACA
1 TTGTATCGATACA
2357618 ATGTGCCATG
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):
TTGTATCGATACA
Found at i:2357690 original size:20 final size:19
Alignment explanation
Indices: 2357665--2357723 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
2357655 TACTGCTAGT
*
2357665 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACA-ATG
2357685 TTCATGTATCGATACAATG
1 TTCATGTATCGATACAATG
**
2357704 AACATGTATCGATACAATG
1 TTCATGTATCGATACAATG
2357723 T
1 T
2357724 ATCGATACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:2357725 original size:13 final size:13
Alignment explanation
Indices: 2357707--2357733 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2357697 TACAATGAAC
2357707 ATGTATCGATACA
1 ATGTATCGATACA
2357720 ATGTATCGATACA
1 ATGTATCGATACA
2357733 A
1 A
2357734 AGCATAATGT
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:2359756 original size:20 final size:20
Alignment explanation
Indices: 2359727--2359773 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
2359717 GCCTGGTTGT
* *
2359727 GACCTGGGTGTGCCGGTCGC
1 GACCTAGGTGTACCGGTCGC
2359747 GACCTAGGTGTACCGGTCGC
1 GACCTAGGTGTACCGGTCGC
2359767 GACCTAG
1 GACCTAG
2359774 AAAGGCTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.30, G:0.38, T:0.19
Consensus pattern (20 bp):
GACCTAGGTGTACCGGTCGC
Found at i:2360233 original size:13 final size:13
Alignment explanation
Indices: 2360215--2360250 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2360205 TAACCCATGT
*
2360215 ATCGATACATTGC
1 ATCGATACAATGC
*
2360228 ATCGATACAATGT
1 ATCGATACAATGC
2360241 ATCGATACAA
1 ATCGATACAA
2360251 AGAACATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:2360302 original size:16 final size:16
Alignment explanation
Indices: 2360281--2360312 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2360271 CTGAGTTTTT
*
2360281 CCAGATGTATCGATAC
1 CCAGATATATCGATAC
2360297 CCAGATATATCGATAC
1 CCAGATATATCGATAC
2360313 ATCTTTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (16 bp):
CCAGATATATCGATAC
Found at i:2364403 original size:104 final size:105
Alignment explanation
Indices: 2364258--2364469 Score: 318
Period size: 104 Copynumber: 2.0 Consensus size: 105
2364248 TTATATCTCT
* * * * *
2364258 ATGTTTCCTATCTTTCTGAGGCATATATGAGATTGAAACTTTTTCAAAAACTTGGATTTA-TTTT
1 ATGTTGCCCATCTTTCTGAGGCATATATGAGATTGAAACTTTTCCAAAAACCTAGATTTATTTTT
2364322 TTATAAAAGTACATGCATTCAAAGGGATTATATCAAAATA
66 TTATAAAAGTACATGCATTCAAAGGGATTATATCAAAATA
* **
2364362 ATGTTGCCCATCTTTCTGGGGTGTATATGAGATTGAAACTTTTCCAAAAACCTAGATTTATTTTT
1 ATGTTGCCCATCTTTCTGAGGCATATATGAGATTGAAACTTTTCCAAAAACCTAGATTTA-TTTT
* *
2364427 TTTATAAAAGTACATGCATTCAAGGGGATTATATCGAAATA
65 TTTATAAAAGTACATGCATTCAAAGGGATTATATCAAAATA
2364468 AT
1 AT
2364470 ATTGAACCAA
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 52 0.54
106 44 0.46
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (105 bp):
ATGTTGCCCATCTTTCTGAGGCATATATGAGATTGAAACTTTTCCAAAAACCTAGATTTATTTTT
TTATAAAAGTACATGCATTCAAAGGGATTATATCAAAATA
Found at i:2371250 original size:23 final size:23
Alignment explanation
Indices: 2371220--2371265 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2371210 GATGGCGTTT
2371220 GCTTGTCTTCACCCATTTATTAA
1 GCTTGTCTTCACCCATTTATTAA
2371243 GCTTGTCTTCACCCATTTATTAA
1 GCTTGTCTTCACCCATTTATTAA
2371266 AGAGGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.09, T:0.43
Consensus pattern (23 bp):
GCTTGTCTTCACCCATTTATTAA
Found at i:2373279 original size:13 final size:13
Alignment explanation
Indices: 2373261--2373287 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2373251 ACATTATGCT
2373261 TTGTATCGATACA
1 TTGTATCGATACA
2373274 TTGTATCGATACA
1 TTGTATCGATACA
2373287 T
1 T
2373288 GCTTATTATA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2373321 original size:20 final size:20
Alignment explanation
Indices: 2373273--2373327 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
2373263 GTATCGATAC
*
2373273 ATTGTATCGATACAT-GCTT
1 ATTGTATCGATACATGGCTA
*
2373292 ATTATATCGATACATGGGC-A
1 ATTGTATCGATACAT-GGCTA
2373312 ATTGTATCGATACATG
1 ATTGTATCGATACATG
2373328 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 15 0.48
20 14 0.45
21 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGCTA
Found at i:2373403 original size:25 final size:25
Alignment explanation
Indices: 2373356--2373406 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
2373346 CTATCGCTCT
*
2373356 TTGTATCGATACATGGTACAATGTA
1 TTGTATCGATACATGATACAATGTA
2373381 TTGTATCGATACATGATGA-AATGTA
1 TTGTATCGATACATGAT-ACAATGTA
2373406 T
1 T
2373407 CGATACATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (25 bp):
TTGTATCGATACATGATACAATGTA
Found at i:2382018 original size:19 final size:20
Alignment explanation
Indices: 2381994--2382044 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2381984 GCCAGTTTCT
*
2381994 TGTATCGATACAATG-A-ACA
1 TGTATCGATACAAAGCATA-A
2382013 TGTATCGATACAAAGCATAA
1 TGTATCGATACAAAGCATAA
2382033 TGTATCGATACA
1 TGTATCGATACA
2382045 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.48
20 14 0.48
21 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGCATAA
Found at i:2382614 original size:18 final size:18
Alignment explanation
Indices: 2382593--2382627 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2382583 ATTAAGGCTC
*
2382593 TTAAAAAAAATTTTCTCT
1 TTAAAAAAAAATTTCTCT
2382611 TTAAAAAAAAATTTCTC
1 TTAAAAAAAAATTTCTC
2382628 CTCCTTGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAAAAAATTTCTCT
Found at i:2384552 original size:13 final size:13
Alignment explanation
Indices: 2384534--2384559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2384524 TAGTACCCCT
2384534 TGTATCGATACAA
1 TGTATCGATACAA
2384547 TGTATCGATACAA
1 TGTATCGATACAA
2384560 AGAATATTGT
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:2385766 original size:20 final size:19
Alignment explanation
Indices: 2385720--2385775 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2385710 AAAACCCTTA
**
2385720 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
2385740 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
2385760 AATGTATCGATACATG
1 AATGTATCGATACATG
2385776 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:2385875 original size:20 final size:20
Alignment explanation
Indices: 2385826--2385877 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2385816 GTAGCCAAAC
**
2385826 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
2385846 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
*
2385865 TTGTATTGATACA
1 TTGTATCGATACA
2385878 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:2388111 original size:21 final size:21
Alignment explanation
Indices: 2388078--2388127 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2388068 TTGCAAGTTG
*
2388078 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2388100 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2388121 AAATAAA
1 AAATAAA
2388128 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2389935 original size:15 final size:15
Alignment explanation
Indices: 2389915--2389945 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2389905 TAAAAATGTC
*
2389915 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2389930 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2389945 C
1 C
2389946 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2393699 original size:23 final size:21
Alignment explanation
Indices: 2393657--2393699 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
2393647 GTTTAATGTT
**
2393657 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
2393678 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
2393700 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:2394630 original size:20 final size:20
Alignment explanation
Indices: 2394585--2394636 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
2394575 GTAGCCAAAC
**
2394585 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
2394605 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
2394624 TTGTATCGATACA
1 TTGTATCGATACA
2394637 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:2399281 original size:19 final size:19
Alignment explanation
Indices: 2399237--2399292 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2399227 CTGCCAGTTT
**
2399237 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2399257 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
2399276 CATGTATTGATACAATG
1 CATGTATCGATACAATG
2399293 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2400702 original size:22 final size:22
Alignment explanation
Indices: 2400674--2400741 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
2400664 TACTATTCAT
2400674 ATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
*
2400696 ATGTATCGATACATGAATAGTG
1 ATGTATCGATACATGAACAGTG
*
2400718 ATGTATCGACACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
2400740 AT
1 AT
2400742 AAACAATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (22 bp):
ATGTATCGATACATGAACAGTG
Found at i:2400834 original size:18 final size:19
Alignment explanation
Indices: 2400790--2400840 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
2400780 CTGCCAGTTT
2400790 TATGTATTGATACAATTCA
1 TATGTATTGATACAATTCA
* *
2400809 TGATGTATCGATACAA-TGA
1 T-ATGTATTGATACAATTCA
2400828 TATGTATTGATAC
1 TATGTATTGATAC
2400841 TAAGCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.39
19 4 0.14
20 13 0.46
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (19 bp):
TATGTATTGATACAATTCA
Found at i:2405399 original size:21 final size:22
Alignment explanation
Indices: 2405375--2405424 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2405365 ATCAAATCTT
* *
2405375 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2405396 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2405418 --TCAAAAT
1 CTTCAAAAT
2405425 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:2407556 original size:12 final size:12
Alignment explanation
Indices: 2407539--2407571 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2407529 GTTTTGTTCG
2407539 CTCAAAAACACT
1 CTCAAAAACACT
2407551 CTCAAAAACACT
1 CTCAAAAACACT
*
2407563 AT-AAAAACA
1 CTCAAAAACA
2407572 TGTTCTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (12 bp):
CTCAAAAACACT
Found at i:2407904 original size:33 final size:33
Alignment explanation
Indices: 2407840--2407908 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
2407830 CTACCACTAT
*
2407840 TTGTATCGATACATGGCACATTCTATTGATACA
1 TTGTATCGATACATGGCACATTCTATCGATACA
*
2407873 TTGTATCGATACATGATG-A-ATTGTATCGATACA
1 TTGTATCGATACATG--GCACATTCTATCGATACA
2407906 TTG
1 TTG
2407909 CTTCAAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGGCACATTCTATCGATACA
Found at i:2408697 original size:32 final size:31
Alignment explanation
Indices: 2408646--2408741 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 31
2408636 TGAGCTTTCA
*
2408646 CTATC-TTTCAAGGCTAAGATAGAAACCTCC
1 CTATCTTTTCAAAGCTAAGATAGAAACCTCC
*
2408676 CTATCTTTTCACAAGCTAAGATAGAACCTCTCTCC
1 CTATCTTTTCA-AAGCTAAGATAGAA--AC-CTCC
*
2408711 CTATCTTTTTTAAAGGCTAAGATAG-AACCTC
1 CTATC-TTTTCAAA-GCTAAGATAGAAACCTC
2408742 TCAATCACTT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
30 5 0.09
31 5 0.09
32 16 0.29
33 1 0.02
34 1 0.02
35 12 0.22
36 15 0.27
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (31 bp):
CTATCTTTTCAAAGCTAAGATAGAAACCTCC
Found at i:2408737 original size:36 final size:36
Alignment explanation
Indices: 2408654--2408743 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
2408644 CACTATCTTT
*
2408654 CAAGGCTAAGATAGAA--AC-CTCCCTATCTTTTCA
1 CAAGGCTAAGATAGAACCTCTCTCCCTATCTTTTCA
*
2408687 CAA-GCTAAGATAGAACCTCTCTCCCTATCTTTTTTA
1 CAAGGCTAAGATAGAACCTCTCTCCCTATC-TTTTCA
2408723 -AAGGCTAAGATAGAACCTCTC
1 CAAGGCTAAGATAGAACCTCTC
2408744 AATCACTTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
32 12 0.24
33 3 0.06
34 1 0.02
35 11 0.22
36 23 0.46
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (36 bp):
CAAGGCTAAGATAGAACCTCTCTCCCTATCTTTTCA
Found at i:2413832 original size:21 final size:21
Alignment explanation
Indices: 2413806--2413881 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2413796 CTGCCAAGAA
*
2413806 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2413827 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
2413847 ATGTATCGATACATCATTTTC
1 ATGTATCGATACATCTTTTTC
2413868 ATGTATCGATACAT
1 ATGTATCGATACAT
2413882 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2413852 original size:20 final size:20
Alignment explanation
Indices: 2413827--2413899 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2413817 CATCTTTTTT
2413827 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
2413847 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
2413868 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2413888 ATGTATCGATAC
1 ATGTATCGATAC
2413900 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2413872 original size:41 final size:41
Alignment explanation
Indices: 2413806--2413899 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2413796 CTGCCAAGAA
* *
2413806 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2413847 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2413888 ATGTATCGATAC
1 ATGTATCGATAC
2413900 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
Found at i:2416365 original size:13 final size:13
Alignment explanation
Indices: 2416347--2416384 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2416337 ATAATCACCC
2416347 TGTATCGATACAG
1 TGTATCGATACAG
*
2416360 TGTATCGATACAT
1 TGTATCGATACAG
2416373 TGTATCGATACA
1 TGTATCGATACA
2416385 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2416398 original size:20 final size:20
Alignment explanation
Indices: 2416373--2416449 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
2416363 ATCGATACAT
2416373 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
2416393 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
*
2416418 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
2416438 TGTATCGATACA
1 TGTATCGATACA
2416450 TTTTGGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:2420328 original size:21 final size:21
Alignment explanation
Indices: 2420299--2420343 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2420289 AAGTTTTCGT
*
2420299 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2420319 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2420341 TTT
1 TTT
2420344 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2422575 original size:13 final size:13
Alignment explanation
Indices: 2422557--2422582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2422547 CAATTTTTTG
2422557 TGTATCGATACAT
1 TGTATCGATACAT
2422570 TGTATCGATACAT
1 TGTATCGATACAT
2422583 ACTTGCTGTA
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:2422647 original size:21 final size:21
Alignment explanation
Indices: 2422621--2422696 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2422611 CTGCCAAGAA
*
2422621 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2422642 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
2422662 ATGTATCGATACATCATTTTC
1 ATGTATCGATACATCTTTTTC
2422683 ATGTATCGATACAT
1 ATGTATCGATACAT
2422697 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2422667 original size:20 final size:20
Alignment explanation
Indices: 2422642--2422714 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2422632 CATCTTTTTT
2422642 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
2422662 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
2422683 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2422703 ATGTATCGATAC
1 ATGTATCGATAC
2422715 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2422687 original size:41 final size:41
Alignment explanation
Indices: 2422621--2422714 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2422611 CTGCCAAGAA
* *
2422621 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2422662 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2422703 ATGTATCGATAC
1 ATGTATCGATAC
2422715 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
Found at i:2425392 original size:13 final size:13
Alignment explanation
Indices: 2425371--2425402 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2425361 TCGATACATT
*
2425371 ATACTTTGTATCG
1 ATACATTGTATCG
2425384 ATACATTGTATCG
1 ATACATTGTATCG
2425397 ATACAT
1 ATACAT
2425403 GCTCATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:2425432 original size:20 final size:19
Alignment explanation
Indices: 2425386--2425442 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2425376 TTGTATCGAT
2425386 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
2425405 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
2425424 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2425443 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:2425513 original size:33 final size:33
Alignment explanation
Indices: 2425471--2425539 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2425461 CTATCACTAG
* *
2425471 TTGTATCGATACATGGT-ACAATGTATCGATATA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
2425504 TTGTATCGATACATGATGAAATGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
2425537 TTG
1 TTG
2425540 CTTGTAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:2426800 original size:97 final size:93
Alignment explanation
Indices: 2426573--2426800 Score: 305
Period size: 93 Copynumber: 2.4 Consensus size: 93
2426563 TGTATCCTCA
* *
2426573 ATGATGACAA-TTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAATCGAAGTTGGAGTAT
1 ATGATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGCTTAAAAACGAAGTTGGAGTAT
2426637 CCCCTCAAAGGAATGGGGCTAGGTGCCC
66 CCCCTCAAAGGAATGGGGCTAGGTGCCC
* * * * * **
2426665 ATGATCAAAATTTAAGTAAAAATAAAATTTAGATCTTGACAAGCTTAAAAACGGGGTTGGAGTAT
1 ATGATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGCTTAAAAACGAAGTTGGAGTAT
* * *
2426730 TCCCTCGAAGGAATGGGGTTAGAGTGTCCGC
66 CCCCTCAAAGGAATGGGGCTAG-GTG-CC-C
2426761 GATGATGACAATTTAAGCAAAAATAAGATTTAAATCTTGA
1 -ATGATGACAATTTAAGCAAAAATAAGATTTAAATCTTGA
2426801 AATTGTTCAT
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
92 8 0.07
93 66 0.58
94 3 0.03
95 2 0.02
96 1 0.01
97 34 0.30
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (93 bp):
ATGATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGCTTAAAAACGAAGTTGGAGTAT
CCCCTCAAAGGAATGGGGCTAGGTGCCC
Found at i:2429355 original size:96 final size:97
Alignment explanation
Indices: 2429209--2429436 Score: 325
Period size: 96 Copynumber: 2.4 Consensus size: 97
2429199 AACCGGGCTA
* * * *
2429209 GAGTATCCTCTTAGAGGAATAGGGTTAGAGTATCCCTAATGATAATAATTTAGGA-AAAAATAAG
1 GAGTATCCTCTTAGAAGAATGGGGTTAGAGTATCCCTAATGATAACAATTTA-AACAAAAATAAG
*
2429273 ATTTAAAGCTTGACAAGTTTAAAAATGGGGTTG
65 ATTTAAAGCTTGACAAGTTTAAAAACGGGGTTG
* * *
2429306 GAGTATCCTCTTAAAAGAATGGGGTT-GAGTATCCCTGATGATGACAATTTAAACAAAAATAAGA
1 GAGTATCCTCTTAGAAGAATGGGGTTAGAGTATCCCTAATGATAACAATTTAAACAAAAATAAGA
*
2429370 TTTAAATCTTGACAAGTTTAAAAACGGGGTTG
66 TTTAAAGCTTGACAAGTTTAAAAACGGGGTTG
* * *
2429402 AAATATCCCCTTAGAAGAATGGGGTTAGAGTATCC
1 GAGTATCCTCTTAGAAGAATGGGGTTAGAGTATCC
2429437 TCATGAATAA
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
95 1 0.01
96 84 0.72
97 31 0.27
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (97 bp):
GAGTATCCTCTTAGAAGAATGGGGTTAGAGTATCCCTAATGATAACAATTTAAACAAAAATAAGA
TTTAAAGCTTGACAAGTTTAAAAACGGGGTTG
Found at i:2429861 original size:13 final size:13
Alignment explanation
Indices: 2429843--2429869 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2429833 ACATTATGCT
2429843 TTGTATCGATACA
1 TTGTATCGATACA
2429856 TTGTATCGATACA
1 TTGTATCGATACA
2429869 T
1 T
2429870 GCATAATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2429971 original size:20 final size:20
Alignment explanation
Indices: 2429915--2429971 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
2429905 TACCCTAAGT
*
2429915 GACA-TGTATCGATACACGA
1 GACATTGTATCGATACATGA
*
2429934 GACATTGTATTGATACATGAA
1 GACATTGTATCGATACATG-A
2429955 GA-ATTGTATCGATACAT
1 GACATTGTATCGATACAT
2429972 TATGCCCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
GACATTGTATCGATACATGA
Found at i:2438623 original size:13 final size:13
Alignment explanation
Indices: 2438605--2438629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2438595 CATTATGCTT
2438605 TGTATCGATACAA
1 TGTATCGATACAA
2438618 TGTATCGATACA
1 TGTATCGATACA
2438630 TGCTCATTGT
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:2438626 original size:33 final size:32
Alignment explanation
Indices: 2438584--2438648 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
2438574 ACACACCCAG
* *
2438584 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATGAT-CATTGTATCGATACA
*
2438617 ATGTATCGATACATGCTCATTGTATCGATACA
1 ATGTATCGATACATGATCATTGTATCGATACA
2438649 TGCTTAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATGATCATTGTATCGATACA
Found at i:2438642 original size:19 final size:20
Alignment explanation
Indices: 2438618--2438666 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
2438608 ATCGATACAA
*
2438618 TGTATCGATACATGC-TCAT
1 TGTATCGATACATGCTTAAT
2438637 TGTATCGATACATGCTTAAT
1 TGTATCGATACATGCTTAAT
2438657 TGTATCGATA
1 TGTATCGATA
2438667 TATGAAACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGCTTAAT
Found at i:2438723 original size:20 final size:20
Alignment explanation
Indices: 2438698--2438769 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
2438688 CCAAGTGAAA
2438698 TGTATCGATACATGGGACAT
1 TGTATCGATACATGGGACAT
2438718 TGTATCGATACATGGGACAT
1 TGTATCGATACATGGGACAT
*
2438738 TGTATCGATACATGAAGA-AT
1 TGTATCGATACATG-GGACAT
2438758 TGTATCGATACA
1 TGTATCGATACA
2438770 ATATGCCCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 48 0.96
21 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGGGACAT
Found at i:2439097 original size:22 final size:20
Alignment explanation
Indices: 2439068--2439112 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
2439058 TAAAGTTTAT
**
2439068 AAAAAAATTTATTAAACATAA
1 AAAAAAATAAATTAAA-ATAA
2439089 AAAATAAATAAATTAAAATAA
1 AAAA-AAATAAATTAAAATAA
2439110 AAA
1 AAA
2439113 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAAATAAATTAAAATAA
Found at i:2439240 original size:40 final size:39
Alignment explanation
Indices: 2439174--2439277 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
2439164 TCCATACGTG
* * *
2439174 TCATTGCATGCA-TAC-TTTCATACATTTCACGTAGCA-TT
1 TCATTGCATGCATTTCATTTCATGCATTTCACATA--ATTT
2439212 TCA-TGCATGCATTTTCATTTCATGCATTTCACATAATTT
1 TCATTGCATGCA-TTTCATTTCATGCATTTCACATAATTT
*
2439251 TCATTTCATGCATTTCATTTCATGCAT
1 TCATTGCATGCATTTCATTTCATGCAT
2439278 GCATTTCATT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
37 8 0.14
38 4 0.07
39 22 0.39
40 23 0.40
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (39 bp):
TCATTGCATGCATTTCATTTCATGCATTTCACATAATTT
Found at i:2439241 original size:14 final size:14
Alignment explanation
Indices: 2439207--2439375 Score: 93
Period size: 14 Copynumber: 13.0 Consensus size: 14
2439197 ATTTCACGTA
*
2439207 GCATTTCA-TGCAT
1 GCATTTCATTTCAT
2439220 GCATTTTCATTTCAT
1 GCA-TTTCATTTCAT
2439235 GCATTTCA---CAT
1 GCATTTCATTTCAT
*
2439246 -AATTTTCATTTCAT
1 GCA-TTTCATTTCAT
2439260 GCATTTCATTTCAT
1 GCATTTCATTTCAT
*
2439274 GCA-TGCATTTCAT
1 GCATTTCATTTCAT
* *
2439287 ---TTTTATTTCAA
1 GCATTTCATTTCAT
*
2439298 GC--TTCA-TGCAT
1 GCATTTCATTTCAT
*
2439309 GCATTTTCATTTCAC
1 GCA-TTTCATTTCAT
*
2439324 GCATTTGA---CAT
1 GCATTTCATTTCAT
*
2439335 AG-TTTTCATTTCAT
1 -GCATTTCATTTCAT
2439349 GCATTTCATTTCAT
1 GCATTTCATTTCAT
*
2439363 GCA-TGCATTTCAT
1 GCATTTCATTTCAT
2439376 AAATGAAAGT
Statistics
Matches: 119, Mismatches: 18, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
10 1 0.01
11 26 0.22
12 4 0.03
13 22 0.18
14 52 0.44
15 14 0.12
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (14 bp):
GCATTTCATTTCAT
Found at i:2439313 original size:89 final size:89
Alignment explanation
Indices: 2439211--2439375 Score: 303
Period size: 89 Copynumber: 1.9 Consensus size: 89
2439201 CACGTAGCAT
*
2439211 TTCATGCATGCATTTTCATTTCATGCATTTCACATAATTTTCATTTCATGCATTTCATTTCATGC
1 TTCATGCATGCATTTTCATTTCACGCATTTCACATAATTTTCATTTCATGCATTTCATTTCATGC
2439276 ATGCATTTCATTTTTATTTCAAGC
66 ATGCATTTCATTTTTATTTCAAGC
* *
2439300 TTCATGCATGCATTTTCATTTCACGCATTTGACATAGTTTTCATTTCATGCATTTCATTTCATGC
1 TTCATGCATGCATTTTCATTTCACGCATTTCACATAATTTTCATTTCATGCATTTCATTTCATGC
2439365 ATGCATTTCAT
66 ATGCATTTCAT
2439376 AAATGAAAGT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (89 bp):
TTCATGCATGCATTTTCATTTCACGCATTTCACATAATTTTCATTTCATGCATTTCATTTCATGC
ATGCATTTCATTTTTATTTCAAGC
Found at i:2439742 original size:22 final size:21
Alignment explanation
Indices: 2439709--2439759 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
2439699 AGTTTTCTTC
*
2439709 CAGCTTCCACAGACAGC-TCCAA
1 CAGC-TCCACAG-CAACTTCCAA
*
2439731 CAGCTCCTACAGCAACTTCCAG
1 CAGCTCC-ACAGCAACTTCCAA
2439753 CAGCTCC
1 CAGCTCC
2439760 CATGGTAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.27, C:0.43, G:0.14, T:0.16
Consensus pattern (21 bp):
CAGCTCCACAGCAACTTCCAA
Found at i:2449934 original size:42 final size:42
Alignment explanation
Indices: 2449882--2451296 Score: 1005
Period size: 42 Copynumber: 33.6 Consensus size: 42
2449872 TTTTTTGTTT
*
2449882 TCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * *
2449924 TCCCTCAGTCTGCCTGTCGGCTTTGATCCTAGAGACTTTCCT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * *
2449966 TCCCTCAGTCTGCCTGTCGGTTTTGACCCTGGAGACTTTCCT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * *
2450008 TTCCTTAGTCTGCCTGTCAGCTTCGTCCCTGGAGACTTTCCT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* *
2450050 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTTTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* ** *
2450092 TCCTTTAGTCTGCCTGTCAACTTTGACCCTGAAGACTTTTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * *
2450134 ACCCTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * * *
2450177 TCCCTCAGTCTGCTTGTCGACTTTGACCTTGGAGACTATCTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
* * * *
2450220 T---TTAAAGTCTGCCTGTTGGC-TTCATCCCTAGAGACTGCCTT-A
1 TCCCTT--AGTCTGCCTGTCGGCTTTGA-CCCTGGAGACT--TTTCA
* * * *
2450262 T---TTAAAGTATGCCTGTCAGTTTTGACCCTAGAGACTTTTCA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
*
2450303 TCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * *
2450345 ACCCTCAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTCCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * * *
2450388 TCCCTTAGTCAGCTTATCGGCTTTGACCTTGGAGACTATCTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
* * * * **
2450431 T---TTAAAGTCTGCCTATCAGCTTCGTCCCTGGAGACTACCTCA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
* * *
2450473 T---TTAAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTTTTA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * *
2450514 ACCCTCAATCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* *
2450557 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGACTATCTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
* * * * **
2450600 T---TTAAAGTCTGCTTGTCAGCTTCGTCCCTGGAGACTGCCTCA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
*
2450642 T---TTAAAGTCTGCCTATCGGCTTTGACCCT-GAGACTTTTCA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * **
2450682 TCCCTTAGTCTGCCTATCGACTTTGACCCTAAAGACTTTTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * *
2450724 ACCCTCAGTCTGCCTGTCAGCTTTGACCCTGGAGACTTTTCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * *
2450767 TCCCTTAGTCTGCCTGTCGGCTGTGACCCT--AGA-GTCTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * ** *
2450806 T---TTAAAGTCTACCTGTCGGCTTCGTCCCTAGAGACTGCCTAA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
* * *
2450848 T---TTAAAGTCTGCCTATCGGCTTTGACCTTAGAGACTTTTCA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * *
2450889 ACCCTTGGTCTACCTGTCGGCTTTGACCTTGGAGACTTTCCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * * *
2450932 TTCCTTAGTCTACTTGTCGGCTTTGACCCTGGAGACTTTCCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * * *
2450975 TTCCTCAGTCTACCTGTCGACTTTGACCTTGGAGACTATTTCA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
* * * * **
2451018 T--CTAAAGTCTGCCTATCGGCTTCGTCCCTGGAGACTGCCTCA
1 TCCCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTTCA
* **
2451060 T---TTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTTCA
1 TCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* *
2451101 TCCCTTAGTTTGCCTGTCGGCTTTGACCCTTGAGACTTTTCAA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* **
2451144 T-CCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TCA
*
2451186 TCCCTTAGTTTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * *
2451229 TCCCTTAGTCTACTTGTCAGCTTTGACCCTGGAGAC-TTTCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * *
2451271 TCCCTAAGTCTGCCCGTTGGCTTTGA
1 TCCCTTAGTCTGCCTGTCGGCTTTGA
2451297 ACCGGGAAAG
Statistics
Matches: 1107, Mismatches: 218, Indels: 96
0.78 0.15 0.07
Matches are distributed among these distances:
36 2 0.00
38 20 0.02
39 1 0.00
40 17 0.02
41 48 0.04
42 728 0.66
43 274 0.25
44 17 0.02
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.36
Consensus pattern (42 bp):
TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
Found at i:2450302 original size:211 final size:209
Alignment explanation
Indices: 2449883--2451265 Score: 1110
Period size: 211 Copynumber: 6.6 Consensus size: 209
2449873 TTTTTGTTTT
*
2449883 CCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCATCCCTCAGTCTGCCTGTCGGCTTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCATCCCTCAGTCTGCCTGTCGGCTTT
* * * ** *
2449948 GATCCTAGAGAC-TTTCCTTCCCTCAGTCTGCCTGTCGGTTTTGACCCTGGAGACT-T-TCCTTT
66 GACCCTAGAGACTTTTCTTTCCCTCAGTCTGCTTGTCGACTTTGACCCTGGAGACTATCTCATTT
** * * ** *
2450010 CCTTAGTCTGCCTGTCAGCTTCGTCCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTA
131 --AAAGTCTGCCTATCAGCTTCATCCCTGGAGAC--TCCTTCATTTAGTCTGCCTGTCGGCTTTG
*
2450075 ACCCTAGAGACTTTTCAT
192 ACCCTAGAGACTTTTCAA
* ** * *
2450093 CCTTTAGTCTGCCTGTCAACTTTGACCCTGAAGACTTTTCAACCCTCAGTCTGCCTGTCGGCTTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCATCCCTCAGTCTGCCTGTCGGCTTT
* * *
2450158 GACCTTGGAGACTTTTCTTTCCCTCAGTCTGCTTGTCGACTTTGACCTTGGAGACTATCTCATTT
66 GACCCTAGAGACTTTTCTTTCCCTCAGTCTGCTTGTCGACTTTGACCCTGGAGACTATCTCATTT
* ** * * * *
2450223 AAAGTCTGCCTGTTGGCTTCATCCCTAGAGACTGCCTT-ATTTAAAGTATGCCTGTCAGTTTTGA
131 AAAGTCTGCCTATCAGCTTCATCCCTGGAGACT-CCTTCATTT--AGTCTGCCTGTCGGCTTTGA
*
2450287 CCCTAGAGACTTTTCAT
193 CCCTAGAGACTTTTCAA
* * *
2450304 CCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCAACCCTCAGTCTGCTTGTCGGCTTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCATCCCTCAGTCTGCCTGTCGGCTTT
* * * * * *
2450369 GACCCTAGAGACTTTCCTTTCCCTTAGTCAGCTTATCGGCTTTGACCTTGGAGACTATCTCATTT
66 GACCCTAGAGACTTTTCTTTCCCTCAGTCTGCTTGTCGACTTTGACCCTGGAGACTATCTCATTT
* *
2450434 AAAGTCTGCCTATCAGCTTCGTCCCTGGAGACTACC-TCATTTAAAGTTTGCCTGTCGGCTTTGA
131 AAAGTCTGCCTATCAGCTTCATCCCTGGAGACT-CCTTCATTT--AGTCTGCCTGTCGGCTTTGA
*
2450498 CCCTAGAGACTTTTTAA
193 CCCTAGAGACTTTTCAA
* * * * * *
2450515 CCCTCAATCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTTTCCCTTAGTCTGCCTGTCGGCTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-ATCCCTCAGTCTGCCTGTCGGCTT
* ** * * **
2450580 TGACCCT-GAAGACTATCTCATTT---AAAGTCTGCTTGTC-AGCTTCGTCCCTGGAGACTGCCT
65 TGACCCTAG-AGACT-TTTC-TTTCCCTCAGTCTGCTTGTCGA-CTTTGACCCTGGAGACTATCT
* * * * *
2450640 CATTTAAAGTCTGCCTATCGGCTTTGA-CCCT-GAGACT-TTTCATCCCTTAGTCTGCCTATCGA
126 CATTTAAAGTCTGCCTATCAGC-TTCATCCCTGGAGACTCCTTCAT---TTAGTCTGCCTGTCGG
*
2450702 CTTTGACCCTAAAGACTTTTCAA
187 CTTTGACCCTAGAGACTTTTCAA
* * * * *
2450725 CCCTCAGTCTGCCTGTCAGCTTTGACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTG
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-ATCCCTCAGTCTGCCTGTCGGCTT
* ** * * * * * * ** *
2450790 TGACCCTAGAG---TCTCATTT---AAAGTCTACCTGTCGGCTTCGTCCCTAGAGACTGCCTAAT
65 TGACCCTAGAGACTTTTC-TTTCCCTCAGTCTGCTTGTCGACTTTGACCCTGGAGACTATCTCAT
* * * * * * * *
2450849 TTAAAGTCTGCCTATCGGCTTTGA-CCTTAGAGACT-TTTCAACCCTTGGTCTACCTGTCGGCTT
129 TTAAAGTCTGCCTATCAGC-TTCATCCCTGGAGACTCCTTC-A--TTTAGTCTGCCTGTCGGCTT
* * * **
2450912 TGACCTTGGAGACTTTCCTTT
190 TGACCCTAGAGACTTTTC-AA
* * * * * * * *
2450933 TCCTTAGTCTACTTGTCGGCTTTGACCCTGGAGACTTTCCTTTTCCTCAGTCTACCTGTCGACTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-ATCCCTCAGTCTGCCTGTCGGCTT
* * * * * * * * * **
2450998 TGACCTTGGAGACTATTTC-AT--CTAAAGTCTGCCTATCGGCTTCGTCCCTGGAGACTGCCTCA
65 TGACCCTAGAGACT-TTTCTTTCCCT-CAGTCTGCTTGTCGACTTTGACCCTGGAGACTATCTCA
* * * * * *
2451060 TTTAAAGTCTACCTGTCAACTTTGA-CCCTGGAGACT-TTTCATCCCTTAGTTTGCCTGTCGGCT
128 TTTAAAGTCTGCCTATCAGC-TTCATCCCTGGAGACTCCTTCAT---TTAGTCTGCCTGTCGGCT
*
2451123 TTGACCCTTGAGACTTTTCAA
189 TTGACCCTAGAGACTTTTCAA
* * ** * *
2451144 TCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTTTCCCTTAGTTTGCCTGTCGGCTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TCATCCCTCAGTCTGCCTGTCGGCTT
* * * *
2451209 TGACCCTGGAGACTTTTCTATCCCTTAGTCTACTTGTC-AGCTTTGACCCTGGAGACT
65 TGACCCTAGAGACTTTTCTTTCCCTCAGTCTGCTTGTCGA-CTTTGACCCTGGAGACT
2451266 TTCTTTCCCT
Statistics
Matches: 979, Mismatches: 156, Indels: 74
0.81 0.13 0.06
Matches are distributed among these distances:
206 69 0.07
207 39 0.04
208 64 0.07
209 7 0.01
210 185 0.19
211 440 0.45
212 163 0.17
213 9 0.01
214 3 0.00
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.36
Consensus pattern (209 bp):
CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCATCCCTCAGTCTGCCTGTCGGCTTT
GACCCTAGAGACTTTTCTTTCCCTCAGTCTGCTTGTCGACTTTGACCCTGGAGACTATCTCATTT
AAAGTCTGCCTATCAGCTTCATCCCTGGAGACTCCTTCATTTAGTCTGCCTGTCGGCTTTGACCC
TAGAGACTTTTCAA
Found at i:2450436 original size:169 final size:168
Alignment explanation
Indices: 2449880--2451266 Score: 936
Period size: 169 Copynumber: 8.2 Consensus size: 168
2449870 TCTTTTTTGT
* * * * *
2449880 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCATCCCT-CAGTCTGCCTGTCGG
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTCAT--TTAAAGTCTGCCTGTCAG
* * * * * * *
2449944 CTTTGATCCTAGAGACTTTCCTTCCCTCAGTCTGCCTGTCGGTTTTGACCCTGGAGACTTTCCTT
64 CTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCAT
* * * * * *
2450009 TCCTTAGTCTGCCTGTCAGCTTCGTCCCTGGAGACTTTCC
129 CCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
* * * * *
2450049 -TTCCCTTAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTTTCATCCTT-TAGTCTGCCTGTCAA
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTCAT--TTAAAGTCTGCCTGTCAG
* * *
2450112 CTTTGACCCT-GAAGACTTTTCAACCCTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCT
64 CTTTGACCCTAG-AGACTTTTCATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-
* * * * * *
2450176 TTCCCTCAGTCTGCTTGTCGACTTTGACCTTGGAGACTATCTCA
127 ATCCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACT-T-TCC
** * * * * * *
2450220 TTT---AAAGTCTGCCTGTTGGC-TTCATCCCTAGAGACTGCCTTATTTAAAGTATGCCTGTCAG
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGA-CCCTGGAGACT-TCTCATTTAAAGTCTGCCTGTCAG
* * *
2450281 TTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCAA
64 CTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCAT
*
2450346 CCCTCAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTCC
129 CCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
* * * * *
2450386 TTTCCCTTAGTCAGCTTATCGGCTTTGACCTTGGAGACTATCTCATTTAAAGTCTGCCTATCAGC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TCTCATTTAAAGTCTGCCTGTCAGC
* * * ** * * *
2450451 TTCGTCCCTGGAGACTACCTCAT---TTAAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTTTT
65 TTTGACCCTAGAGACT-TTTCATCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
* *
2450513 AACCCTCAATCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
127 ATCCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
* *
2450555 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGACTATCTCATTTAAAGTCTGCTTGTCAGC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TCTCATTTAAAGTCTGCCTGTCAGC
* * * ** *
2450620 TTCGTCCCTGGAGACTGCCTCAT---TTAAAGTCTGCCTATCGGCTTTGACCCT-GAGACTTTTC
65 TTTGACCCTAGAGACT-TTTCATCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
* * * * *
2450681 ATCCCTTAGTCTGCCTATCGACTTTGACCCTAAAGACTTTTC
127 ATCCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
** * * * ** *
2450723 -AACCCTCAGTCTGCCTGTCAGCTTTGACCCTGGAGACTTTTC-TTTCCCTTAGTCTGCCTGTCG
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTCATTT---AAAGTCTGCCTGTCA
* * * * * * **
2450786 GCTGTGACCCTAGAG---TCTCAT---TTAAAGTCTACCTGTCGGCTTCGTCCCTAGAGACTGCC
63 GCTTTGACCCTAGAGACTTTTCATCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TT
* * * * * *
2450845 TAAT--TTAAAGTCTGCCTATCGGCTTTGACCTTAGAGACTTTTC
125 TCATCCCT-CAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
** * * * * ** * * *
2450888 -AACCCTTGGTCTACCTGTCGGCTTTGACCTTGGAGACTT-TCCTTTTCCTTAGTCTACTTGTCG
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCT-CATTT--AAAGTCTGCCTGTCA
* * * * * * * *
2450951 GCTTTGACCCTGGAGACTTTCCTTTTCCTCAGTCTACCTGTCGACTTTGACCTTGGAGACTATTT
63 GCTTTGACCCTAGAGACTTTTC-ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-TTT
* * * * * *
2451016 CAT--CTAAAGTCTGCCTATCGGCTTCGTCCCTGGAGAC-TGCC
126 CATCCCT-CAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
** * ** * *
2451057 --TCATTTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTTCATCCCTT--AGTTTGCCTGT
1 TTTCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTCAT---TTAAAGTCTGCCTGT
* * *
2451118 CGGCTTTGACCCTTGAGACTTTTCAAT-CCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTT
61 CAGCTTTGACCCTAGAGACTTTTC-ATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
** * * * *
2451182 CTTTTCCCTTAGTTTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
125 -TCATCCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
* * * *
2451227 TATCCCTTAGTCTACTTGTCAGCTTTGACCCTGGAGACTT
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTT
2451267 TCTTTCCCTA
Statistics
Matches: 1002, Mismatches: 173, Indels: 85
0.80 0.14 0.07
Matches are distributed among these distances:
164 31 0.03
165 104 0.10
166 14 0.01
167 39 0.04
168 253 0.25
169 415 0.41
170 134 0.13
171 3 0.00
172 7 0.01
173 2 0.00
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.36
Consensus pattern (168 bp):
TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTCATTTAAAGTCTGCCTGTCAGCT
TTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCATCC
CTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCC
Found at i:2451968 original size:14 final size:15
Alignment explanation
Indices: 2451944--2452003 Score: 69
Period size: 14 Copynumber: 4.4 Consensus size: 15
2451934 AAGCTTCATG
2451944 CATGCATTTTCATTT
1 CATGCATTTTCATTT
2451959 CATGCA-TTTCA---
1 CATGCATTTTCATTT
*
2451970 CAT-AATTTTCATTT
1 CATGCATTTTCATTT
2451984 CATGCA-TTTCATTT
1 CATGCATTTTCATTT
2451998 CATGCA
1 CATGCA
2452004 CGTATTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 1 0.03
11 8 0.21
14 22 0.58
15 7 0.18
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (15 bp):
CATGCATTTTCATTT
Found at i:2452447 original size:31 final size:31
Alignment explanation
Indices: 2452384--2452451 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
2452374 CATAGCAACT
* **
2452384 TCCAGCAGCTCCCACAACAGCCTCTAGTAGC
1 TCCAGCAGCTCCCACAACAGCCTCCAACAGC
***
2452415 TCCAGCAGCTCCCACGGTAGCCTCCAACAGC
1 TCCAGCAGCTCCCACAACAGCCTCCAACAGC
2452446 T-CAGCA
1 TCCAGCA
2452452 AACACGAGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.25, C:0.43, G:0.18, T:0.15
Consensus pattern (31 bp):
TCCAGCAGCTCCCACAACAGCCTCCAACAGC
Found at i:2452504 original size:31 final size:31
Alignment explanation
Indices: 2452466--2452526 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2452456 CGAGCAGCCC
* *
2452466 CCCACAGCTCCTACAATAACTTCCAACAGCT
1 CCCACAGCTCCCACAACAACTTCCAACAGCT
*
2452497 CCCACAGCTCCCACAACAACTTCCAGCAGC
1 CCCACAGCTCCCACAACAACTTCCAACAGC
2452527 GAAAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (31 bp):
CCCACAGCTCCCACAACAACTTCCAACAGCT
Found at i:2459924 original size:20 final size:20
Alignment explanation
Indices: 2459899--2459951 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2459889 AAATTCCCAG
2459899 ATGTATCGATACAAAGA-TCA
1 ATGTATCGATACAAAGAGT-A
**
2459919 ATGTATCGATACACTGAGTA
1 ATGTATCGATACAAAGAGTA
2459939 ATGTATCGATACA
1 ATGTATCGATACA
2459952 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACAAAGAGTA
Found at i:2460021 original size:32 final size:32
Alignment explanation
Indices: 2459970--2460047 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
2459960 GCAGTAGCTT
* * *
2459970 TGTAGCGATACATTGTATCGATACAGCACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
2460002 TGTATCGATACATTATATCGATACAACACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
* *
2460034 TTTATCAATACATT
1 TGTATCGATACATT
2460048 TACTGTTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTATATCGATACAACACTTA
Found at i:2461192 original size:20 final size:21
Alignment explanation
Indices: 2461169--2461214 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
2461159 GTATATATTA
*
2461169 ATACATT-CACTTAT-GTATCG
1 ATACATTAC-CTTATAGTACCG
2461189 ATACATTACCTTATAGTACCG
1 ATACATTACCTTATAGTACCG
2461210 ATACA
1 ATACA
2461215 AACTGTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (21 bp):
ATACATTACCTTATAGTACCG
Found at i:2463013 original size:82 final size:82
Alignment explanation
Indices: 2462876--2463075 Score: 337
Period size: 82 Copynumber: 2.4 Consensus size: 82
2462866 ATACATGTCC
**
2462876 AGCATGTATTGATACATTCACTTATGTATCGATACAATTTTTCAGAATGCAAAAATTTGCCTCAA
1 AGCATGTATCAATACATTCACTTATGTATCGATACAATTTTTCAGAATGCAAAAATTTGCCTCAA
2462941 CAAGGTCCAATATTGAT
66 CAAGGTCCAATATTGAT
* *
2462958 AGCATGTATCAATACATTCACTTATGTATCGATACAATTTTTCAGAATGCAAAAATTTTCCTCGA
1 AGCATGTATCAATACATTCACTTATGTATCGATACAATTTTTCAGAATGCAAAAATTTGCCTCAA
2463023 CAAGGTCCAATATTGAT
66 CAAGGTCCAATATTGAT
* * *
2463040 AGCATGTATCAATACATTCATTTATGCATTGATACA
1 AGCATGTATCAATACATTCACTTATGTATCGATACA
2463076 TTGACTTGTT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 111 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.34
Consensus pattern (82 bp):
AGCATGTATCAATACATTCACTTATGTATCGATACAATTTTTCAGAATGCAAAAATTTGCCTCAA
CAAGGTCCAATATTGAT
Found at i:2463916 original size:56 final size:56
Alignment explanation
Indices: 2463849--2463983 Score: 270
Period size: 56 Copynumber: 2.4 Consensus size: 56
2463839 TACTACACAA
2463849 AATTTACTAGGATGTGATCTTTTAGTTTTTGAAATCCAATATATTCATAAGGTTGG
1 AATTTACTAGGATGTGATCTTTTAGTTTTTGAAATCCAATATATTCATAAGGTTGG
2463905 AATTTACTAGGATGTGATCTTTTAGTTTTTGAAATCCAATATATTCATAAGGTTGG
1 AATTTACTAGGATGTGATCTTTTAGTTTTTGAAATCCAATATATTCATAAGGTTGG
2463961 AATTTACTAGGATGTGATCTTTT
1 AATTTACTAGGATGTGATCTTTT
2463984 CAATCTCAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 79 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (56 bp):
AATTTACTAGGATGTGATCTTTTAGTTTTTGAAATCCAATATATTCATAAGGTTGG
Found at i:2468036 original size:19 final size:18
Alignment explanation
Indices: 2468012--2468074 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
2468002 AGCGATACAT
2468012 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2468031 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
2468044 TGTATCAATACAACACTTA
1 TGTATCGATACAA-ACTTA
2468063 TGTATCGATACA
1 TGTATCGATACA
2468075 GTTACGGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2468045 original size:32 final size:32
Alignment explanation
Indices: 2468004--2468074 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
2467994 AGCTTCGTAG
*
2468004 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
*
2468036 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
2468068 CGATACA
1 CGATACA
2468075 GTTACGGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCAATACAAAACTTATGTAT
Found at i:2468903 original size:43 final size:43
Alignment explanation
Indices: 2468842--2468924 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
2468832 GATGAAGATA
* *
2468842 CCAATGTGCTGATTCAAGGCC-GACGACATTGGACTTAAAGGTG
1 CCAATATGCTAATTCAAGGCCAG-CGACATTGGACTTAAAGGTG
* *
2468885 CCAATATGCTAATTCAAGGCCAGCGATATTGGAGTTAAAG
1 CCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAG
2468925 ATGAAGATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
CCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGGTG
Found at i:2468941 original size:92 final size:92
Alignment explanation
Indices: 2468784--2468976 Score: 287
Period size: 92 Copynumber: 2.1 Consensus size: 92
2468774 CTTAGGAATG
* *
2468784 TTAAAGATGCTAATATGCTGATTCAAGGCCAACAATATCAGACTTAAAGATGAAGATACCAATGT
1 TTAAAGATGCCAATATGCTAATTCAAGGCCAACAATATCAGACTTAAAGATGAAGATACCAATGT
2468849 GCTGATTCAAGGCCGACGACATTGGAC
66 GCTGATTCAAGGCCGACGACATTGGAC
* * * ** *
2468876 TTAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGAGTTAAAGATGAAGATACCAATGT
1 TTAAAGATGCCAATATGCTAATTCAAGGCCAACAATATCAGACTTAAAGATGAAGATACCAATGT
* **
2468941 GCTGATTCAAGGCCGGCGACATTGGTT
66 GCTGATTCAAGGCCGACGACATTGGAC
2468968 TTAAAGATG
1 TTAAAGATG
2468977 GTTAAGGTGC
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (92 bp):
TTAAAGATGCCAATATGCTAATTCAAGGCCAACAATATCAGACTTAAAGATGAAGATACCAATGT
GCTGATTCAAGGCCGACGACATTGGAC
Found at i:2469003 original size:52 final size:49
Alignment explanation
Indices: 2468695--2469025 Score: 232
Period size: 49 Copynumber: 6.8 Consensus size: 49
2468685 CGAAGAATGA
* * * * *
2468695 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAGTTAAAGATGAAGGTGC
** * * * *
2468742 CAATGTGCTGAGACAAGGCCATCGACATTGG-GCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAG-TTA--AA-GATGAAGGTGC
* * * * * ** * * *
2468794 TAATATGCTGATTCAAGGCCAACAATATCAGACTTAAAGATGAAGATAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAGTTAAAGATGAAGGTGC
*
2468843 CAATGTGCTGATTCAAGGCC-GACGACATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGAGTTAAAGATGAAGGTGC
* * * * *
2468886 CAATATGCTAATTCAAGGCCAGCGATATTGGAGTTAAAGATGAAGATAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAGTTAAAGATGAAGGTGC
* **
2468935 CAATGTGCTGATTCAAGGCCGGCGACATTGGTTTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAGTTAAAGAT-G--AAGGTGC
* *
2468987 CAATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAGTTAAAG
2469026 GTGCCACGGA
Statistics
Matches: 216, Mismatches: 50, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
43 34 0.16
44 1 0.00
45 1 0.00
47 29 0.13
49 77 0.36
50 6 0.03
52 68 0.31
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGAGTTAAAGATGAAGGTGC
Found at i:2469102 original size:32 final size:33
Alignment explanation
Indices: 2469023--2469103 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
2469013 ATTGGACTTA
2469023 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
*
2469056 AAGGTGCCACGGAGTTGTGGACTTAAAAGG-GC
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
2469088 AAGAG-GCCACGGAGTT
1 AAG-GTGCCACGGAGTT
2469104 ATGGGCTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
32 15 0.33
33 31 0.67
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.17
Consensus pattern (33 bp):
AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
Found at i:2469163 original size:89 final size:88
Alignment explanation
Indices: 2469088--2469288 Score: 228
Period size: 89 Copynumber: 2.3 Consensus size: 88
2469078 TTAAAAGGGC
* * ** *
2469088 AAGAG-GCCACGGAGTTATGGGCTTTTG-AAGGTTGCCACTGCCTTGTGGGCTTTGGAAAAGATG
1 AAGAGTGCCACGGACTTATGGGCTTTGGAAAGAATGCCACTGACTTGTGGGCTTTGGAAAAGATG
* *
2469151 CCACTGACTTGTGGGCTTTGGAA
66 CCACTGACTTGTGGACTTAGGAA
* *
2469174 AAGAGTGCCACTGACTTGTGGGCTTTGGAAAAGAATGCCACTGACTTGTGGGCTTTGGAAAAGAA
1 AAGAGTGCCACGGACTTATGGGCTTTGG-AAAGAATGCCACTGACTTGTGGGCTTTGGAAAAG-A
* **
2469239 TGCCACTGACTTGTGGGCTTTTGAA
64 TGCCACTGACTTGTGGACTTAGGAA
** *
2469264 AAGA-TGCCACTAACTTGTGGGCTTT
1 AAGAGTGCCACGGACTTATGGGCTTT
2469289 TGAAGGTGAG
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
86 5 0.05
87 18 0.18
89 50 0.49
90 29 0.28
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (88 bp):
AAGAGTGCCACGGACTTATGGGCTTTGGAAAGAATGCCACTGACTTGTGGGCTTTGGAAAAGATG
CCACTGACTTGTGGACTTAGGAA
Found at i:2469292 original size:29 final size:29
Alignment explanation
Indices: 2469120--2469288 Score: 284
Period size: 30 Copynumber: 5.7 Consensus size: 29
2469110 TTTTGAAGGT
*
2469120 TGCCACTGCCTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
2469149 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
2469178 GTGCCACTGACTTGTGGGCTTTGGAAAAGAA
1 -TGCCACTGACTTGTGGGCTTTGGAAAAG-A
2469209 TGCCACTGACTTGTGGGCTTTGGAAAAGAA
1 TGCCACTGACTTGTGGGCTTTGGAAAAG-A
*
2469239 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
2469268 TGCCACTAACTTGTGGGCTTT
1 TGCCACTGACTTGTGGGCTTT
2469289 TGAAGGTGAG
Statistics
Matches: 135, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
29 49 0.36
30 85 0.63
31 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:2470731 original size:4 final size:4
Alignment explanation
Indices: 2470718--2470775 Score: 61
Period size: 4 Copynumber: 15.2 Consensus size: 4
2470708 CCGGACCCTT
* *
2470718 TTTG -TTG TTTG TTTG TTTG TTTG TTT- TTTG TCTG TTTT TTTG TTTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG -TTTG
2470765 TTT- TTT- TTTG T
1 TTTG TTTG TTTG T
2470776 AGAGGACACC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 12 0.26
4 30 0.65
5 4 0.09
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.79
Consensus pattern (4 bp):
TTTG
Found at i:2470753 original size:27 final size:26
Alignment explanation
Indices: 2470716--2470775 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
2470706 ATCCGGACCC
2470716 TTTTTGTTGTTTGTTTG-TTTGTTTGT
1 TTTTTGTTGTTTGTTTGTTTTGTTT-T
*
2470742 TTTTTGTCTGTTTTTTTGTTTTGTTTT
1 TTTTTGT-TGTTTGTTTGTTTTGTTTT
2470769 TTTTTGT
1 TTTTTGT
2470776 AGAGGACACC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 7 0.23
27 17 0.55
28 7 0.23
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (26 bp):
TTTTTGTTGTTTGTTTGTTTTGTTTT
Found at i:2470762 original size:19 final size:19
Alignment explanation
Indices: 2470716--2470763 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
2470706 ATCCGGACCC
* *
2470716 TTTTTGTTGTTTGTTTGTT
1 TTTTTGTTTTTTGTCTGTT
*
2470735 TGTTTGTTTTTTGTCTGTT
1 TTTTTGTTTTTTGTCTGTT
2470754 TTTTTGTTTT
1 TTTTTGTTTT
2470764 GTTTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.79
Consensus pattern (19 bp):
TTTTTGTTTTTTGTCTGTT
Found at i:2484323 original size:13 final size:13
Alignment explanation
Indices: 2484305--2484332 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2484295 TACAAAAGAT
2484305 CAATGTATCGATA
1 CAATGTATCGATA
2484318 CAATGTATCGATA
1 CAATGTATCGATA
2484331 CA
1 CA
2484333 TTTGGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2484413 original size:19 final size:19
Alignment explanation
Indices: 2484385--2484447 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
2484375 AGCGATACAT
*
2484385 TGTATGGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2484404 TGTATCGAT---AAA--T-
1 TGTATCGATACAAAACTTA
* *
2484417 TGTCTCGATACAACACTTA
1 TGTATCGATACAAAACTTA
2484436 TGTATCGATACA
1 TGTATCGATACA
2484448 GTTTCGGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
16 5 0.15
18 1 0.03
19 19 0.56
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2484419 original size:32 final size:32
Alignment explanation
Indices: 2484377--2484445 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
2484367 AGCTTCGTAG
* *
2484377 CGATACATTGTATGGATACAAAACTTATGTAT
1 CGATAAATTGTATCGATACAAAACTTATGTAT
* *
2484409 CGATAAATTGTCTCGATACAACACTTATGTAT
1 CGATAAATTGTATCGATACAAAACTTATGTAT
2484441 CGATA
1 CGATA
2484446 CAGTTTCGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
CGATAAATTGTATCGATACAAAACTTATGTAT
Found at i:2487516 original size:15 final size:15
Alignment explanation
Indices: 2487496--2487530 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2487486 AACCATCAAA
2487496 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
2487511 GATGATGATGATAAT
1 GATGATGAAGATAAT
2487526 GATGA
1 GATGA
2487531 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:2492037 original size:20 final size:20
Alignment explanation
Indices: 2492012--2492063 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2492002 TATTCCAAAA
2492012 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
2492032 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
2492052 TGTATCGATACA
1 TGTATCGATACA
2492064 TTGTATCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATGTTCTT
Found at i:2492069 original size:13 final size:13
Alignment explanation
Indices: 2492051--2492090 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2492041 ACAATGTTCT
2492051 TTGTATCGATACA
1 TTGTATCGATACA
* *
2492064 TTGTATCCATAGA
1 TTGTATCGATACA
*
2492077 ATGTATCGATACA
1 TTGTATCGATACA
2492090 T
1 T
2492091 GGGTTACTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2494751 original size:20 final size:19
Alignment explanation
Indices: 2494726--2494775 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
2494716 CACGGTTTCG
2494726 ATCGATACATG-GTACATTGT
1 ATCGATACATGAG-A-ATTGT
2494746 ATCGATACATGAAGAATTGT
1 ATCGATACATG-AGAATTGT
2494766 ATCGATACAT
1 ATCGATACAT
2494776 TGTCTCAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 26 0.93
21 1 0.04
22 1 0.04
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
ATCGATACATGAGAATTGT
Found at i:2496932 original size:65 final size:66
Alignment explanation
Indices: 2496862--2496988 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 66
2496852 AGTTTGATCG
*
2496862 TAGGCTTATCCTAACTTT-TAGGAAAGTAGATTCAACTT-A-AAAGAAAAATACCTAGACTTCAT
1 TAGGCTTAACCT-A-TTTCTAGGAAAGTAGATTCAACTTCAGAAAGAAAAATACCTAGACTTCAT
2496924 TCC
64 TCC
* * * *
2496927 TAGGCTTAACCTATTTCTATGAAAGTAGATTCAATTTCAGAAAGAAAAATACTTAGAGTTCA
1 TAGGCTTAACCTATTTCTAGGAAAGTAGATTCAACTTCAGAAAGAAAAATACCTAGACTTCA
2496989 ACCCCAAGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
63 3 0.06
64 19 0.35
65 12 0.22
66 20 0.37
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (66 bp):
TAGGCTTAACCTATTTCTAGGAAAGTAGATTCAACTTCAGAAAGAAAAATACCTAGACTTCATTC
C
Found at i:2510013 original size:20 final size:20
Alignment explanation
Indices: 2509990--2510038 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
2509980 CAAGTTAATG
2509990 TATCGATACATAAGTGAATA
1 TATCGATACATAAGTGAATA
*
2510010 TATCGATACATAAGTGAATG
1 TATCGATACATAAGTGAATA
*
2510030 TATCAATAC
1 TATCGATAC
2510039 TAGACTCTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
TATCGATACATAAGTGAATA
Found at i:2513771 original size:13 final size:13
Alignment explanation
Indices: 2513753--2513777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2513743 ACATTTGGTT
2513753 ATGTATCGATACA
1 ATGTATCGATACA
2513766 ATGTATCGATAC
1 ATGTATCGATAC
2513778 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:2514376 original size:22 final size:22
Alignment explanation
Indices: 2514333--2514377 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2514323 TTTTCTGTTC
*
2514333 TCTCCCCCTTAATCATAAAATT
1 TCTCCCCCTTAATCAAAAAATT
2514355 TCTCCCCCTTAAT-AAAATAATT
1 TCTCCCCCTTAATCAAAA-AATT
2514377 T
1 T
2514378 AACAATTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:2516458 original size:8 final size:8
Alignment explanation
Indices: 2516445--2516470 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2516435 AACATCATTC
2516445 ATCACAAA
1 ATCACAAA
2516453 ATCACAAA
1 ATCACAAA
2516461 ATCACAAA
1 ATCACAAA
2516469 AT
1 AT
2516471 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:2522443 original size:13 final size:13
Alignment explanation
Indices: 2522425--2522482 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
2522415 CATTTTGGGA
2522425 TGTATCGATACAT
1 TGTATCGATACAT
2522438 TGTATCGATACATCTTGT
1 TGTATCGATACA-----T
2522456 GTGTATCGATACAT
1 -TGTATCGATACAT
2522470 TGTATCGATACAT
1 TGTATCGATACAT
2522483 CTTGTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 25 0.64
14 1 0.03
18 1 0.03
19 12 0.31
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2522462 original size:19 final size:19
Alignment explanation
Indices: 2522438--2522500 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
2522428 ATCGATACAT
2522438 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2522457 TGTATCGATACA-----T-
1 TGTATCGATACATCTTGTG
2522470 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2522489 TGTATCGATACA
1 TGTATCGATACA
2522501 AACAGTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
18 1 0.03
19 24 0.63
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATCTTGTG
Found at i:2522466 original size:32 final size:32
Alignment explanation
Indices: 2522405--2522500 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
2522395 TACATGCCAA
* *
2522405 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGTG-TGTATCGATACAT
2522438 TGTATCGATACATCTTGTGTGTATCGATACAT
1 TGTATCGATACATCTTGTGTGTATCGATACAT
2522470 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGTGTGTATCGATACA
2522501 AACAGTTAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 44 0.72
33 17 0.28
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATCTTGTGTGTATCGATACAT
Found at i:2526042 original size:13 final size:13
Alignment explanation
Indices: 2526024--2526048 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2526014 CACACCCAGA
2526024 TGTATCGATACAT
1 TGTATCGATACAT
2526037 TGTATCGATACA
1 TGTATCGATACA
2526049 CCATAAAATG
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:2530388 original size:49 final size:49
Alignment explanation
Indices: 2530326--2530564 Score: 193
Period size: 49 Copynumber: 5.2 Consensus size: 49
2530316 AGGAATGTTA
* * *
2530326 AAGATGCCAATATGCTGATTCAAGGCCAATGATGTCGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
* * *
2530375 AAGATACCAATATGCTGATTCAAGGCCGGTGACATTGGACTT-AA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
* * * *
2530421 --G-TGTCAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
* * * * * *
2530467 AAGATGCCAATGTGCTGATTCAAGACTAGCGACATTGG--TTTAA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
* * * *
2530512 --G-TGCCAATATGCTGATTCAAGGCTAGCGATATTGGAGTT--AGAAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
2530556 AAGATGCCA
1 AAGATGCCA
2530565 CCAACTTGTG
Statistics
Matches: 155, Mismatches: 22, Indels: 28
0.76 0.11 0.14
Matches are distributed among these distances:
42 32 0.21
43 33 0.21
44 6 0.04
45 2 0.01
46 4 0.03
47 10 0.06
48 3 0.02
49 65 0.42
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
Found at i:2530443 original size:43 final size:43
Alignment explanation
Indices: 2530382--2530547 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 43
2530372 ATGAAGATAC
* * *
2530382 CAATATGCTGATTCAAGGCCGGTGACATTGGACTTAAAGGTGT
1 CAATATACTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGT
* * *
2530425 CAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGATGC
1 CAATATACTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G--G-TGT
* * * * * *
2530474 CAATGTGCTGATTCAAGACTAGCGACATTGG-TTTAAAGGTGC
1 CAATATACTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGT
* * *
2530516 CAATATGCTGATTCAAGGCTAGCGATATTGGA
1 CAATATACTGATTCAAGGCCAGCGACATTGGA
2530548 GTTAGAAGAA
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
42 31 0.30
43 31 0.30
44 2 0.02
45 2 0.02
46 2 0.02
47 2 0.02
48 3 0.03
49 29 0.28
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
CAATATACTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGT
Found at i:2530483 original size:92 final size:91
Alignment explanation
Indices: 2530323--2530564 Score: 308
Period size: 92 Copynumber: 2.7 Consensus size: 91
2530313 CTTAGGAATG
* * ** * * *
2530323 TTAAAGATGCCAATATGCTGATTCAAGGCCAATGATGTCGGACTTAAAGATGAAGATACCAATAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGATGCCAATAT
* * *
2530388 GCTGATTCAAGGCCGGTGACATTGGAC
66 GCTGATTCAAGACCAGCGACATTGG-C
* * *
2530415 TTAAAGGTGTCAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGATGCCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGATGCCAATAT
* *
2530480 GCTGATTCAAGACTAGCGACATTGGT
66 GCTGATTCAAGACCAGCGACATTGGC
* *
2530506 TTAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGAGTT--AGAAGAAGATGCCA
1 TTAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGATGCCA
2530565 CCAACTTGTG
Statistics
Matches: 131, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
89 13 0.10
91 42 0.32
92 76 0.58
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (91 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGATGCCAATAT
GCTGATTCAAGACCAGCGACATTGGC
Found at i:2530631 original size:28 final size:28
Alignment explanation
Indices: 2530573--2530815 Score: 236
Period size: 28 Copynumber: 8.5 Consensus size: 28
2530563 CACCAACTTG
* **
2530573 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGC-TTTGGAA-GGTTGCCACTGACT
* *
2530602 TGTGTGCTTTCGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* *
2530630 TGTGGGCTTTGGAAAAGGGTGCTACTGACT
1 TGTGGGCTTTGG--AAGGTTGCCACTGACT
* *
2530660 TGTAGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
*** *
2530688 TGTGGGCTTTGGAAAAAATGCCACTAACT
1 TGTGGGCTTTGG-AAGGTTGCCACTGACT
*
2530717 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* * *
2530745 TATGGGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* ** *
2530773 TGCGGGCTTTGGAAAATATGCCACTAACT
1 TGTGGGCTTTGGAAGGT-TGCCACTGACT
2530802 TGTGGGCTTTGGAA
1 TGTGGGCTTTGGAA
2530816 AAGGTGAGGA
Statistics
Matches: 177, Mismatches: 32, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
27 5 0.03
28 95 0.54
29 53 0.30
30 24 0.14
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTGGAAGGTTGCCACTGACT
Found at i:2530745 original size:57 final size:57
Alignment explanation
Indices: 2530598--2530818 Score: 273
Period size: 57 Copynumber: 3.9 Consensus size: 57
2530588 GGGTTGCACC
* * * *
2530598 AACTTGTGTGCTTTCGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCTACT
1 AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAA-GATGCCACT
* * *
2530656 GACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAAATGCCACT
1 AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* * * *
2530713 AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTTG-AAGGTTGCCACT
1 AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* * ** *
2530769 AACTTGCGGGCTTTGGAAAATATGCCACTAACTTGTGGGCTTTGGAAAAG
1 AACTTGTGGGCTTTTGAAGGT-TGCCACTGACTTGTGGGCTTTGGAAAAG
2530819 GTGAGGAATC
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
56 26 0.19
57 66 0.47
58 47 0.34
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (57 bp):
AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
Found at i:2530760 original size:85 final size:86
Alignment explanation
Indices: 2530619--2530821 Score: 300
Period size: 85 Copynumber: 2.4 Consensus size: 86
2530609 TTTCGAAGGT
* * *
2530619 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCTACTGACTTGTAGGCTTTTGAAGGTTGCCACT
1 TGCCACTAACTTGTGGGCTTTGG-AAAGGGTGCCACTGACTTATAGGCTTTTGAAGGTTGCCACT
* *
2530684 GACTTGTGGGCTTTGGAAAAAA
65 AACTTGCGGGCTTTGGAAAAAA
* * *
2530706 TGCCACTAACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTATGGGCTTTTGAAGGTTGCCACTA
1 TGCCACTAACTTGTGGGCTTTGGAAAGGGTGCCACTGACTTATAGGCTTTTGAAGGTTGCCACTA
*
2530770 ACTTGCGGGCTTTGGAAAATA
66 ACTTGCGGGCTTTGGAAAAAA
*
2530791 TGCCACTAACTTGTGGGCTTTGGAAAAGGTG
1 TGCCACTAACTTGTGGGCTTTGGAAAGGGTG
2530822 AGGAATCTCT
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
85 77 0.75
86 5 0.05
87 21 0.20
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.32
Consensus pattern (86 bp):
TGCCACTAACTTGTGGGCTTTGGAAAGGGTGCCACTGACTTATAGGCTTTTGAAGGTTGCCACTA
ACTTGCGGGCTTTGGAAAAAA
Found at i:2532254 original size:1 final size:1
Alignment explanation
Indices: 2532250--2532324 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
2532240 TTTGTTGTTG
* * * * * * * * * * *
2532250 TTTTTTTGTTTGTTTGTTTGTTTTTTGTTTTGTTTTGTGTTTTTTTTTCTTTTTTTTGTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2532315 TTTTTTTTTT
1 TTTTTTTTTT
2532325 GCGGAGGATG
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.85
Consensus pattern (1 bp):
T
Found at i:2532262 original size:12 final size:12
Alignment explanation
Indices: 2532238--2532318 Score: 78
Period size: 12 Copynumber: 6.6 Consensus size: 12
2532228 ATCCGGACCC
2532238 TTTTTGTTG-TTG
1 TTTTT-TTGTTTG
2532250 TTTTTTTGTTTG
1 TTTTTTTGTTTG
*
2532262 TTTGTTTGTTT-
1 TTTTTTTGTTTG
2532273 TTTGTTTTGTTTTG
1 TTT-TTTTG-TTTG
*
2532287 TGTTTTTT-TTTCT
1 T-TTTTTTGTTT-G
2532300 TTTTTTTGTTTG
1 TTTTTTTGTTTG
2532312 TTTTTTT
1 TTTTTTT
2532319 TTTTTTGCGG
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
11 6 0.10
12 38 0.66
13 7 0.12
14 5 0.09
15 2 0.03
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (12 bp):
TTTTTTTGTTTG
Done.