Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 170 of 313
Found at i:53109023 original size:84 final size:87
Alignment explanation
Indices: 53108840--53109033 Score: 268
Period size: 91 Copynumber: 2.2 Consensus size: 87
53108830 ATCTAATCCT
* *
53108840 CTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
53108905 AAGATTTGTGGTTCTAATCCGCTCCA
66 AAG---TGT-GTTCTAATCCGCTCCA
* *
53108931 TTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGATAGATAAGATCC
1 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
53108996 AAG-GT-TT-TAATCCGCTCCA
66 AAGTGTGTTCTAATCCGCTCCA
* * *
53109015 CTGTAACTTTAGAGAGATA
1 CTGCAACTTCAGGGAGATA
53109034 GGATTATCGG
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
84 27 0.28
85 2 0.02
87 2 0.02
91 64 0.67
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (87 bp):
CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
AAGTGTGTTCTAATCCGCTCCA
Found at i:53109127 original size:173 final size:172
Alignment explanation
Indices: 53108932--53110334 Score: 1342
Period size: 173 Copynumber: 8.1 Consensus size: 172
53108922 TCCGCTCCAT
*
53108932 TGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGATAGATAAGATCCA
1 TGCAACTTCAGGG-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCA
* * *
53108997 AGGTTTTAATCCGCTCCACTGTAACTTTA-GAGAGATAGGATTATCGGCTTTAACCTGCTCCACT
65 AGGTTTTAATCCACTCCACTGCAACTTCAGGA-AGATAGGATTATCGGCTTTAACCTGCTCCACT
*
53109061 ACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
129 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * * *
53109105 TACAACTTCAGGTGGATAAGACTTA-ATGCGATCTGTTCTCTGTAACTTCAGAAAGATAAGATCC
1 TGCAACTTCAGG-GGATAAGAC-TAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
* *
53109169 AAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACT
64 AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACT
53109234 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
129 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * * * * * * *
53109278 TGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGG-GGATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA
* * *** ** * * * * * * *
53109343 --CTA-GATGCGATCTGCT-CTCTGTAACTTCA-GAGAGATAAGATCCA-AGGTTTTAATCC-AC
61 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGA-AGATAGGAT-TATCGGCTTTAA-CCTGC
* * * * ** *
53109401 TCCACTGCAACTT-TGGGAAGATAGGATTAT-CGA-CTTTAACCTGCCTCTC
123 TCCACTGCAACTTCAGGG-AGATAAGATT-TGCCATCTTCAGTCTGCCTCAC
* * * * * * * *
53109450 TGTAACTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAG-GGGATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA
* * *** ** * * * * *
53109515 --CTA-GATGCGATCTGCT-CTCTGCAACTTCA-GATAGATAAGATCCA-AGGTTTTAATCC-GC
61 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGA-AGATAGGAT-TATCGGCTTTAA-CCTGC
* * * * * **
53109573 TCCACTGTAACTTTAGAGAGATAGGATTATCGGC-T-TT-AACCTG-CTCCAC
123 TCCACTGCAACTTCAGGGAGATAAGATT-T-GCCATCTTCAGTCTGCCT-CAC
*
53109622 TACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCA
1 TGCAACTTCAGGG-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCA
*
53109687 AGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTG
65 AGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTG
*
53109752 CAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
130 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * * *
53109795 TACAACTTCAGGTGGATAAGACTTA-ATGCGATCTGTTCTCTGTAACTTCAGAAAGATAAGATCC
1 TGCAACTTCAGG-GGATAAGAC-TAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
* *
53109859 AAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACT
64 AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACT
*
53109924 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTC
129 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* *
53109968 TGCAACTTTAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTC--AGAGATAAGATCCA
1 TGCAACTTCAGG-GGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCA
* * * **
53110031 TGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGATAAGATT-T-GCCATCTTCAGTCTGC-CT
65 AGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTATCGGC-T-TT-AACCTGCTC-
* * * ** *
53110092 CTCTGCAACTTTA-GGAGGATAAGACTTGCTTTCTT-AGTCT-ACTCCAC
125 CACTGCAACTTCAGGGA-GATAAGATTTGCCATCTTCAGTCTGCCT-CAC
* *
53110139 TGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGTAACTTCAGAGAGATAAGATCCA
1 TGCAACTTCAGGG-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCA
* *
53110204 AGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGTTCCACTA
65 AGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTG
* *
53110269 CAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTC
130 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * *
53110312 AGTAACTTTAGGAGGATAAGACT
1 TGCAACTTCAGG-GGATAAGACT
53110335 TGCTTACTTA
Statistics
Matches: 1041, Mismatches: 137, Indels: 104
0.81 0.11 0.08
Matches are distributed among these distances:
168 22 0.02
169 8 0.01
170 10 0.01
171 121 0.12
172 304 0.29
173 520 0.50
174 27 0.03
175 5 0.00
176 5 0.00
177 19 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (172 bp):
TGCAACTTCAGGGGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAA
GGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGC
AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
Found at i:53109353 original size:217 final size:216
Alignment explanation
Indices: 53109051--53109516 Score: 608
Period size: 217 Copynumber: 2.1 Consensus size: 216
53109041 CGGCTTTAAC
* * *
53109051 CTGCTCCACTACAACTTCAGGGAGATAAGATTTGC-CATCTTCAGTCTGCCTCACTACAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AGTCTGCCTCACTACAACTTCA
*
53109115 GGTGGATAAGACTTAATGCGATCTGTTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTTAAT
64 GGTGGATAAGACTTAATGCGATCTGCTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTTAAT
* *
53109180 CCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTG-CTCCACTGCAACTTCAG
129 CCACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCCT-CACTGCAACTTCAG
* *
53109244 -GGAGATAAGATTTGCCAT-CTTCAGT
193 AAG-GATAAGACTTG-CATACTT-AGT
* * *
53109269 CTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTACTTAGTCTG-CTCCACTGCAACTTT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGTCTGCCT-CACTACAACTTC
* *
53109331 AGG-GAGATAAGAC-TAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTT
63 AGGTG-GATAAGACTTA-ATGCGATCTGCTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTT
** * *
53109394 AATCCACTCCACTGCAACTTTGGGAAGATAGGATTATCGACTTTAACCTGCCTCTCTGTAACTTC
126 AATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCCTCACTGCAACTTC
*
53109459 AGAAGGATAAGACTTGCTTACTTAGT
191 AGAAGGATAAGACTTGCATACTTAGT
53109485 CTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT
53109517 AGATGCGATC
Statistics
Matches: 218, Mismatches: 19, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
216 35 0.16
217 150 0.69
218 32 0.15
219 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (216 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGTCTGCCTCACTACAACTTCAGG
TGGATAAGACTTAATGCGATCTGCTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTTAATCC
ACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAACCTGCCTCACTGCAACTTCAGAAG
GATAAGACTTGCATACTTAGT
Found at i:53109423 original size:84 final size:82
Alignment explanation
Indices: 53109315--53109595 Score: 287
Period size: 84 Copynumber: 3.3 Consensus size: 82
53109305 TACTTAGTCT
53109315 GCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATA
1 GCTCCACTGCAACTTT-GGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGA-AGATA
53109380 AGATCCAAGGTTTTAATCC
64 AGATCCAAGGTTTTAATCC
* * * *** *
53109399 ACTCCACTGCAACTTTGGGAAGATAGGATTATCGACTTTAACCTGCCTCTCTGTAACTTCAGAAG
1 GCTCCACTGCAACTTTGGG-AGATAAGACTA--GA-TGCGATCTG-CTCTCTGTAACTTCAGAA-
** * * *
53109464 GATAAGA--CTTGCTTACTTAGTCT
60 GATAAGATCCAAGGTT--TTAATCC
* *
53109487 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGATAGATA
1 GCTCCACTGCAACTT-TGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGA-AGATA
53109552 AGATCCAAGGTTTTAATCC
64 AGATCCAAGGTTTTAATCC
* *
53109571 GCTCCACTGTAACTTTAGAGAGATA
1 GCTCCACTGCAACTTT-GGGAGATA
53109596 GGATTATCGG
Statistics
Matches: 155, Mismatches: 29, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
83 3 0.02
84 73 0.47
85 6 0.04
86 12 0.08
87 6 0.04
88 52 0.34
89 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (82 bp):
GCTCCACTGCAACTTTGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAAGATAAG
ATCCAAGGTTTTAATCC
Found at i:53109516 original size:44 final size:44
Alignment explanation
Indices: 53109183--53111286 Score: 299
Period size: 44 Copynumber: 48.7 Consensus size: 44
53109173 TTTTAATCCA
* * * * *
53109183 CTCCACTGCAACTTCAGGAAGATAGGA-TT-ATTGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-AC-TTAATCTG
* * *
53109227 CTCCACTGCAACTTCAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* *
53109272 C-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * * *
53109316 CTCCACTGCAACTTTAGGGAGATAAGACTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * ** * **
53109357 CT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * * *
53109400 CTCCACTGCAACTT-TGGGAAGATAGGA-TT-ATCGACTTTAACCTG
1 CTCCACTGCAACTTCAGGG-AGATAAGACTTGCT-TAC-TTAATCTG
* * * *
53109444 C-CTCTCTGTAACTTCA-GAAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * *
53109488 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* ** ** * *
53109529 CT-CTCTGCAACTTCAGATAGATAAGATCCAAGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * * * *
53109572 CTCCACTGTAACTTTAGAGAGATAGGATTATCGGC-T--TTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * * *
53109616 CTCCACTACAACTTCAGGGAGATAAGACTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * ** * **
53109657 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * * *
53109700 CTCCACTACAACTTCAGGAAGATAGGATTATCGGC-T--TTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * *
53109744 CTCCACTGCAACTTCAAGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* ** * *
53109789 C-CTCACTACAACTTCAGGTG-GATAAGACTT-AATGC--GATCTG
1 CTC-CACTGCAACTTCAGG-GAGATAAGACTTGCTTACTTAATCTG
* * * ** ** * **
53109830 -TTCTCTGTAACTTCAGAAAGATAAGATCCAAGATT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * * *
53109873 CTCCACTGCAACTTCAGGAAGATAGGA-TT-ATTGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-AC-TTAATCTG
* * *
53109917 CTCCACTGCAACTTCAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * * * *
53109962 C-CTCTCTGCAACTTTA-GGAGGATAAGACTTG-ATGC--GATCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * **
53110003 CT-CTCTGCAACTTCA--GAGATAAGATCCATGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * *
53110044 CTCCACTGCAACTTCAAGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * * * *
53110089 C-CTCTCTGCAACTTTA-GGAGGATAAGACTTGCTTTCTTAGTCTA
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * * *
53110133 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * ** * **
53110174 CT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * *
53110217 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGC-T--TTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * * * *
53110261 TTCCACTACAACTTCAAGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * *
53110306 CCTCTCA--GTAACTTTA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 -CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * * * *
53110350 CTCCACTGCAACCTCAAGGAGATAAGACTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * ** * **
53110391 CT-CTCTGCAACTTTAGAGAGATAAGATCCAAG-TT-TTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * * * *
53110434 CTCCACTGTAACTTCAGGAAGATAGGA-TT-ATTGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-AC-TTAATCTG
* * * *
53110478 CTCCACTACAACTTCAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * *
53110523 C-CTCTCTGCAACTTTA-GGAGGATAAGACTTGC-TGC--AATCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* ** * ** * **
53110564 CT-CTCTGCAACTTCAAAGAGATAAAATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * *
53110607 CTCCACTACAACTTCAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * * *
53110652 C-CTCTCTGCAACTTCA-GGAGGATAAGACTTACTTACTTATTCTA
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * * * * * *
53110696 CTCCACTGCAACTTCAGAGAGATAAAAATAG-ATGC--GATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * ** * **
53110737 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * *
53110780 CTCCACTGCAACTTCAGGAAGATAGGATTATCGGC-T--TTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * *
53110824 CTCCACTGCAACTTCAGGGAAATAAGATTTGC-CATCTTCAGTCT-
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* *
53110868 -TCCTTTCTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTCC--ACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * *
53110913 CTCCACTGCAACTTCAGGGAAATAAGATTTGC-CATCTTCAGTCT-
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* *
53110957 -TCCTTTCTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTCC--ACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * *
53111002 CTCCACTGCAACTTCAGGGAAATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * * *
53111047 C-CTCACTGCAACTTC-TGGAGGATAAGACTTG-ATGC--GATCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * * **
53111088 -----C-GCAACTTCAGAGTGATAAGA-TT-CAATATTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGC-TTA-CTTAATCTG
* * * * *
53111126 CTCCACTACAACTTCAGGAAGATAGGA-TAT-C-GACTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCTTAC-TTAATCTG
* * * * *
53111169 CTTCACTGCAACTTCAGAGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
** * *
53111214 C-CTCTTTGCAACTTCA-GGAGGATAAGACTTGCTTTCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
*
53111258 CTCCATTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
53111287 AGATGCGATC
Statistics
Matches: 1478, Mismatches: 381, Indels: 402
0.65 0.17 0.18
Matches are distributed among these distances:
34 2 0.00
35 17 0.01
36 2 0.00
38 10 0.01
39 2 0.00
40 179 0.12
41 71 0.05
42 38 0.03
43 106 0.07
44 682 0.46
45 352 0.24
46 15 0.01
47 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
Found at i:53109537 original size:128 final size:128
Alignment explanation
Indices: 53109485--53109770 Score: 380
Period size: 128 Copynumber: 2.2 Consensus size: 128
53109475 CTTACTTAGT
*
53109485 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAAC-TTCAGATAG
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTCAGATAG
** * * *
53109549 ATAAGATCCAAGGTTTTAATCCGCTCCACTGTAACTTTAGAGAGATAGGATTATCGGCTTTAAC
66 ATAAGATCCAAGACTTTAATCCGCTCCACTGTAACTTCAGAGAGATAAGACTATC-GCTTTAAC
*
53109613 CTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAAC-TTCAGAGAG
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTCAGATAG
** * ** * *
53109677 ATAAGATCCAAGGTTTTAATCCACTCCACTACAACTTCAG-GAAGATAGGATTATCGGCTTTAAC
66 ATAAGATCCAAGACTTTAATCCGCTCCACTGTAACTTCAGAG-AGATAAGACTATC-GCTTTAAC
* *
53109741 CTGCTCCACTGCAACTTCAAGGAGATAAGA
1 CTGCTCCACTACAACTTCAGGGAGATAAGA
53109771 TTTGCCATCT
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
127 1 0.01
128 148 0.99
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (128 bp):
CTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTCAGATAG
ATAAGATCCAAGACTTTAATCCGCTCCACTGTAACTTCAGAGAGATAAGACTATCGCTTTAAC
Found at i:53110104 original size:517 final size:513
Alignment explanation
Indices: 53108932--53110464 Score: 1621
Period size: 517 Copynumber: 3.0 Consensus size: 513
53108922 TCCGCTCCAT
*
53108932 TGCAACTTCAGG-GAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGATAGATAAGATCC
1 TGCAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAG--AGATAAGATCC
* * * * * *
53108996 AAGGTTTTAATCCGCTCCACTGTAACTTTAGAGAGATAGGATTATCGGC-TTTAACCTGCTCCAC
63 ATGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATT-T-GCCATTTAATCTGCTCCAC
* * * *
53109060 TACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTACAACTTCAGGTG-GATA
126 TGCAACTTTA-GGAGATAAGATTTGGCTTCTT-AGTCTGCTC-CACTACAACTTCAGG-GAGATA
* * *
53109123 AGACTTA-ATGCGATCTGTTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTTAATCCACTCC
187 AGAC-TAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCC
* *
53109187 ACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAA
251 ACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAAGGAGATAA
* ** *
53109252 GATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGC
316 GATTTGCCATCTTCAGTCTGCCTCACTACAACTTTAGGAGGATAAGACTTGAATACTGAGTCTGC
* ** * * ** * *
53109317 TCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAG
381 TCCACTGCAACTTCAGAAAGATAAGACAAGATGCAATCCACTCACTGCAACTTCAGAGAGATAAG
* * * * *
53109382 ATCCAAGGTTTTAATCCACTCCACTGCAACTTTGGGAAGATAGGATTATCGACTTTAACCTGCCT
446 ATCCAAGGCTTTAATCCACTCCACTGCAACTTAGGGAAGATAAGATTATCCACTTCAACCTGCCT
53109447 CTC
511 CTC
* * * * * *
53109450 TGTAACTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGAGGATAAGACTTG-ATGC-GA-TCTGCT-CTCTGCAACTTCA--GAGATAAGA
* * *** * * * *
53109515 --C-TAGATGCGATCTGCT-CTCTGCAACTTCAGATAGATAAGA--T-CCAAGGTTTTAATCCGC
60 TCCATGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTTGCC-A---TTTAATCTGC
* * **
53109573 TCCACTGTAACTTTAGAGAGATAGGATTATCGGC-T-TTAACCTGCTCCACTACAACTTCAGGGA
121 TCCACTGCAACTTTAG-GAGATAAGATT-T-GGCTTCTTAGTCTGCTCCACTACAACTTCAGGGA
*
53109636 GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCAC
183 GATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCAC
*
53109701 TCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAAGGAGA
248 TCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAAGGAGA
* * *
53109766 TAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGTGGATAAGACTT-AATGC-GA-TC
313 TAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTTAGGAGGATAAGACTTGAATACTGAGTC
* * * **
53109828 TG-TTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAG-G
378 TGCTCCACTGCAACTTCAGAAAGATAAGA--CAAGA-TGCAATCCACT-CACTGCAACTTCAGAG
* * * *
53109891 AAGATAGGAT-TATTGGCTTTAA-CCTGCTCCACTGCAACTTCAGGG-AGATAAGATT-TGCCAT
439 -AGATAAGATCCA-AGGCTTTAATCC-ACTCCACTGCAACTT-AGGGAAGATAAGATTAT-CCA-
**
53109952 CTTCAGTCTGCCTCTC
498 CTTCAACCTGCCTCTC
*
53109968 TGCAACTTTAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGATAAGATCCATG
1 TGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGATAAGATCCATG
* * *
53110033 GTTTTAATCCACTCCACTGCAACTTCA-AGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCTCT
66 GTTTTAATCCGCTCCACTGCAACTTCAGA-GAGATAAGATTTGCCAT-TT-AATCTGCTC-CACT
* * *
53110096 GCAACTTTAGGAGGATAAGACTT-GCTTTCTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGA
127 GCAACTTTAGGA-GATAAGATTTGGC-TTCTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
*
53110160 CTAGATGCGATTTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTG
190 CTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTG
* *
53110225 CAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGTTCCACTACAACTTCAAGGAGATAAGATT
255 CAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAAGGAGATAAGATT
* * ** *
53110290 TGCCATCTTCAGTCTGCCTCTC-AGTAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCC
320 TGCCATCTTCAGTCTGCCTCACTA-CAACTTTAGGAGGATAAGACTTGAATACTGAGTCTGCTCC
* * * * ** * *
53110354 ACTGCAACCTCA-AGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGAT
384 ACTGCAACTTCAGA-AAGATAAGACAAGATGCAATCCACTCACTGCAACTTCAGAGAGATAAGAT
** * *
53110418 CCAAGTTTTTAATCCACTCCACTGTAACTTCA-GGAAGATAGGATTAT
448 CCAAGGCTTTAATCCACTCCACTGCAACTT-AGGGAAGATAAGATTAT
53110465 TGGCTTTAAC
Statistics
Matches: 833, Mismatches: 128, Indels: 108
0.78 0.12 0.10
Matches are distributed among these distances:
512 9 0.01
513 21 0.03
514 19 0.02
515 22 0.03
516 47 0.06
517 515 0.62
518 125 0.15
519 20 0.02
520 9 0.01
521 25 0.03
522 20 0.02
524 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (513 bp):
TGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGATAAGATCCATG
GTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATTTAATCTGCTCCACTGCAA
CTTTAGGAGATAAGATTTGGCTTCTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGAT
GCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTT
CAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCAT
CTTCAGTCTGCCTCACTACAACTTTAGGAGGATAAGACTTGAATACTGAGTCTGCTCCACTGCAA
CTTCAGAAAGATAAGACAAGATGCAATCCACTCACTGCAACTTCAGAGAGATAAGATCCAAGGCT
TTAATCCACTCCACTGCAACTTAGGGAAGATAAGATTATCCACTTCAACCTGCCTCTC
Found at i:53110304 original size:217 final size:217
Alignment explanation
Indices: 53110044--53110555 Score: 889
Period size: 217 Copynumber: 2.4 Consensus size: 217
53110034 TTTTAATCCA
*
53110044 CTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
1 CTCCACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
* * * *
53110109 GATAAGACTTGCTTTCTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTG
66 GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACCTCAAGGAGATAAGACTAGATGCGATCTG
*
53110174 CTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGA
131 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGA
53110239 TAGGATTATCGGCTTTAACCTG
196 TAGGATTATCGGCTTTAACCTG
* * *
53110261 TTCCACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGTAACTTTAGGAG
1 CTCCACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
*
53110326 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACCTCAAGGAGATAAGACTAGATGCGATCTG
66 GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACCTCAAGGAGATAAGACTAGATGCGATCTG
* * *
53110391 CTCTCTGCAACTTTAGAGAGATAAGATCCAAGTTTTTAATCCACTCCACTGTAACTTCAGGAAGA
131 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGA
*
53110456 TAGGATTATTGGCTTTAACCTG
196 TAGGATTATCGGCTTTAACCTG
*
53110478 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
1 CTCCACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
53110543 GATAAGACTTGCT
66 GATAAGACTTGCT
53110556 GCAATCTGCT
Statistics
Matches: 277, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 277 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
CTCCACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
GATAAGACTTGCTTACTTAGTCTACTCCACTGCAACCTCAAGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGA
TAGGATTATCGGCTTTAACCTG
Found at i:53110401 original size:173 final size:173
Alignment explanation
Indices: 53108933--53110808 Score: 1065
Period size: 173 Copynumber: 10.9 Consensus size: 173
53108923 CCGCTCCATT
* * *
53108933 GCAACTTCAGG-GAGATAAGACTAG-ATGCGATCTGCT-CTCTGCAACTTCAGATAGATAAGATC
1 GCAACTTCAGGAG-GATAAGACTTGCATACGATCTGCTCCTCTGCAACTTCAGAGAGATAAGA-C
* * ** * * * * *
53108995 CAAGGTTTTAATCCGCTCCACTGTAACTTTA-GAGAGATAGGATTATCGGCTTTAACCTGCTCCA
64 CTA-GATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGATTATAGGCTTTAACCTGCTCCA
* * *
53109059 CTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTA
127 CTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTC-A
* * * * * *
53109107 -CAACTTCAGGTGGATAAGACTT-AATGCGATCTG-TTCTCTGTAACTTCAGAAAGATAAGATCC
1 GCAACTTCAGGAGGATAAGACTTGCATACGATCTGCTCCTCTGCAACTTCAGAGAGATAAGA-CC
* ** * *
53109169 AAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACT
65 TAGA-TGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATAGGCTTTAACCTGCTCCACT
* * *
53109234 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACT
129 GCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCA
* * * * * *
53109279 GCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGA-
1 GCAACTTCAGGAGGATAAGACTTGCATAC-GA-TCTGCTCCTCTGCAACTTCAGAGAGATAAGAC
* ** * * * * *
53109343 CTAGATGCGATCTGCT-CTCTGTAACTTCA-GAGAGATAAGATCCA-AGGTTTTAATCC-ACTCC
64 CTAGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TATAGGCTTTAA-CCTGCTCC
** * * * ** *
53109404 ACTGCAACTT-TGGGAAGATAGGATTAT-CGA-CTTTAACCTGCCTCTCT
126 ACTGCAACTTCAAGG-AGATAAGATT-TGCCATCTTCAGTCTGCCTCTCA
* * * * * *
53109451 GTAACTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-
1 GCAACTTCAGGAGGATAAGACTTGCATAC-GA-TCTGCTCCTCTGCAACTTCAGAGAGATAAGAC
* ** * * *
53109515 CTAGATGCGATCTGCT-CTCTGCAACTTCA-GATAGATAAGATCCA-AGGTTTTAATCC-GCTCC
64 CTAGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TATAGGCTTTAA-CCTGCTCC
* * * * **
53109576 ACTGTAACTT-TAGAGAGATAGGATTATCGGC-T-TT-AACCTG-CTC-CA
126 ACTGCAACTTCAAG-GAGATAAGATT-T-GCCATCTTCAGTCTGCCTCTCA
* * *
53109621 CTACAACTTCAGG-GAGATAAGACTAG-ATGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGA
1 --GCAACTTCAGGAG-GATAAGACTTGCATACGATCTGCTCCTCTGCAACTTCAGAGAGATAAGA
* * ** * * *
53109683 TCCAAGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCC
63 -CCTA-GATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATAGGCTTTAACCTGCTCC
*
53109748 ACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTA
126 ACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTC-A
* * * * * *
53109797 -CAACTTCAGGTGGATAAGACTT-AATGCGATCTG-TTCTCTGTAACTTCAGAAAGATAAGATCC
1 GCAACTTCAGGAGGATAAGACTTGCATACGATCTGCTCCTCTGCAACTTCAGAGAGATAAGA-CC
* ** * *
53109859 AAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACT
65 TAGA-TGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATAGGCTTTAACCTGCTCCACT
* *
53109924 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCT
129 GCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCA
* *
53109969 GCAACTTTAGGAGGATAAGACTTG-ATGCGATCTGCT-CTCTGCAACTTC--AGAGATAAGATCC
1 GCAACTTCAGGAGGATAAGACTTGCATACGATCTGCTCCTCTGCAACTTCAGAGAGATAAGA-CC
* * ** * **
53110030 ATGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGATAAGATT-T-GCCATCTTCAGTCTGC-C
65 -TAGATGCAATCCACTCCACTGCAACTTC-AGGAAGATAAGATTATAGGC-T-TT-AACCTGCTC
* * * ** *
53110091 TCTCTGCAACTT-TAGGAGGATAAGACTTGCTTTCTT-AGTCT-ACTC-CA
125 -CACTGCAACTTCAAGGA-GATAAGATTTGCCATCTTCAGTCTGCCTCTCA
* * * *
53110138 CTGCAACTTCAGG-GAGATAAGACTAG-ATGCGATTTGCT-CTCTGTAACTTCAGAGAGATAAGA
1 --GCAACTTCAGGAG-GATAAGACTTGCATACGATCTGCTCCTCTGCAACTTCAGAGAGATAAGA
* * ** * * *
53110200 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGTTCC
63 -CCTA-GATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATAGGCTTTAACCTGCTCC
*
53110265 ACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCA
126 ACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCA
* * * * * *
53110313 GTAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACCTCA-AGGAGATAAGA
1 GCAACTTCAGGAGGATAAGACTTGCATAC-GA-TCTGCTCCTCTGCAACTTCAGA-GAGATAAGA
* ** * * * ** *
53110377 -CTAGATGCGATCTGCT-CTCTGCAACTTTA-GAGAGATAAGATCCA-AGTTTTTAATCC-ACTC
63 CCTAGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TATAGGCTTTAA-CCTGCTC
* * * **
53110437 CACTGTAACTTC-AGGAAGATAGGATTATTGGC-T-TT-AACCTG-CTC-CA
125 CACTGCAACTTCAAGG-AGATAAGA-T-TTGCCATCTTCAGTCTGCCTCTCA
* * * *
53110483 CTACAACTTCAGG-GAGATAAGATTTGCCAT-CTTCAGTCTGC-CTCTCTGCAACTTTAG-GAGG
1 --GCAACTTCAGGAG-GATAAGACTTG-CATAC--GA-TCTGCTC-CTCTGCAACTTCAGAGA-G
* * ** * * * * *
53110544 ATAAGA-CTTGCTGCAATCTGCT-CTCTGCAACTTCA-AAGAGATAAAATCCA-AGGTTTTAATC
57 ATAAGACCTAGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TATAGGCTTTAA-C
* * * *
53110605 C-ACTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCT
119 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCA
* * * * * *
53110659 GCAACTTCAGGAGGATAAGACTTACTTACTTATTCTACTCCACTGCAACTTCAGAGAGATAA-AA
1 GCAACTTCAGGAGGATAAGACTTGCATAC-GA-TCTGCTCCTCTGCAACTTCAGAGAGATAAGAC
* * * * * * *
53110723 ATAGATGCGATCTACT-CTCTGCAACTTCA-GAGAGATAAGATCCA-AGGTTTTAATCC-ACTCC
64 CTAGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TATAGGCTTTAA-CCTGCTCC
*
53110784 ACTGCAACTTC-AGGAAGATAGGATT
126 ACTGCAACTTCAAGG-AGATAAGATT
53110809 ATCGGCTTTA
Statistics
Matches: 1403, Mismatches: 203, Indels: 193
0.78 0.11 0.11
Matches are distributed among these distances:
168 22 0.02
169 9 0.01
170 14 0.01
171 124 0.09
172 340 0.24
173 753 0.54
174 69 0.05
175 21 0.01
176 12 0.01
177 39 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (173 bp):
GCAACTTCAGGAGGATAAGACTTGCATACGATCTGCTCCTCTGCAACTTCAGAGAGATAAGACCT
AGATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATAGGCTTTAACCTGCTCCACTGC
AACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCA
Found at i:53110634 original size:346 final size:347
Alignment explanation
Indices: 53109227--53111273 Score: 1235
Period size: 346 Copynumber: 5.9 Consensus size: 347
53109217 CTTTAACCTG
* * * *
53109227 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAG
1 CTCCACTACAACTTCA-GGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGAG
*
53109292 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTG
65 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTAGATGCGATCTG
* * **
53109357 CTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTTGGGAAGA
129 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGTTTTTAATCCACTCCACTGCAACTTCAGGAAGA
* * * * * *
53109422 TAGGATTATCGACTTTAACCTGC-CTCTCTGTAACTTCA-GAAGGATAAGACTTG-CTTACTT-A
194 TAGGATTATCGGCTTTAACCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCA
* * * * * *
53109483 GTCTG-CTCCACTGCAACTTCAGG-GAGATAAGACTAGATGC-GATCTGCT-CTCTGCAACTTCA
256 GTCTGCCT-CTCTGCAACTTCAGGAG-GATAAGACTTGCTACTAATCTGCTCCACTGCAACTTCA
* * * *
53109544 GATAGATAAG--AT-CCAAGGT-TTTAATC-C
319 AAGAAATAAGATATGCC-A--TCTTCAATCTC
** * * * ** *
53109571 GCTCCACTGTAACTTTAGAGAGATAGGATTATCGGC-T-TT-AACCTG-CTC-CACTACAACTTC
1 -CTCCACTACAACTTCAG-GAGATAAGATT-T-GCCATCTTCAGTCTGCCTCTCA--GCAACTTC
* * * * * * *
53109631 AGG-GAGATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGT
60 AGGAG-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAG-GAGATAAGA--CTA-GA
*** ** * * * * * ** *
53109691 TTTAATCCACTCCACTACAACTTCAG-GAAGATAGGAT-TATCGGCTTTAA-CCTGCTCCACTGC
120 TGCGATCTGCT-CTCTGCAACTTCAGAG-AGATAAGATCCA-AGTTTTTAATCC-ACTCCACTGC
* * ** *
53109753 AACTTCAAGG-AGATAAGATT-T-GCCATCTTCAGTCTGC-CTCACTACAACTTCAGGTG-GATA
181 AACTTC-AGGAAGATAGGATTATCGGC-T-TT-AACCTGCTC-CACTGCAACTTCAGG-GAGATA
* * * * * * * ** * ** *
53109813 AGACTT---A-ATGC-GATCTG-TTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTTAATCC
240 AGATTTGCCATCTTCAG-TCTGCCTCTCTGCAACTTCAGGAGGATAAGA--CTTGCTACTAATCT
* * * * * *
53109872 ACTCCACTGCAACTTC-AGGAAGATAGGATTATTGGC-T-TT-AACCTG
302 GCTCCACTGCAACTTCAAAGAA-ATAAGA-TA-TGCCATCTTCAATCTC
* * *
53109917 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
1 CTCCACTACAACTTCA-GGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGAG
* * * * * * ***
53109982 GATAAGACTTG-ATGC-GA-TCTGCT-CTCTGCAACTTCA-GAGATAAGATCCATGGTTTTAATC
65 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGAGATAAGA--C-TAGATGCGATC
** * * * * *
53110042 CACTCCACTGCAACTTCA-AGGAGATAAGATTTGCC-A-TCTTCAGTCTGC-CT-CTCTGCAACT
127 TGCT-CTCTGCAACTTCAGA-GAGATAAGA--T-CCAAGTTTTTAATC--CACTCCACTGCAACT
* * * * ** * * *
53110102 TTAGGAGGATAAGACT-T--GCTTTCTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAG
185 TCAGGAAGATAGGATTATCGGC--T-TTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * * ** * ** **
53110164 --A--TGC-GATTTG-CTCTCTGTAACTTCA-GAGAGATAAGATCCAAGGTTTTAATCCACTCCA
247 CCATCTTCAG-TCTGCCTCTCTGCAACTTCAGGAG-GATAAGA--CTTGCTACTAATCTGCTCCA
* * * * *
53110222 CTGCAACTTC-AGGAAGATAGGATTATCGGC-T-TT-AACCTG
308 CTGCAACTTCAAAGAA-ATAAGA-TAT-GCCATCTTCAATCTC
* * *
53110261 TTCCACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGTAACTTTAGGAG
1 CTCCACTACAACTTC-AGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGAG
*
53110326 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACCTCAAGGAGATAAGACTAGATGCGATCTG
65 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTC-AGGAGATAAGACTAGATGCGATCTG
* *
53110391 CTCTCTGCAACTTTAGAGAGATAAGATCCAAGTTTTTAATCCACTCCACTGTAACTTCAGGAAGA
129 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGTTTTTAATCCACTCCACTGCAACTTCAGGAAGA
* *
53110456 TAGGATTATTGGCTTTAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
194 TAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
* * * *
53110521 TGCCTCTCTGCAACTTTAGGAGGATAAGACTTGCTGC-AATCTGCT-CTCTGCAACTTCAAAGAG
259 TGCCTCTCTGCAACTTCAGGAGGATAAGACTTGCTACTAATCTGCTCCACTGCAACTTCAAAGAA
*
53110584 ATAA-A-AT-CCAAGGT-TTTAATC-C
324 ATAAGATATGCC-A--TCTTCAATCTC
*
53110606 ACTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGA
1 -CTCCACTACAACTTCA-GGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGA
* * * * *
53110671 GGATAAGACTTACTTACTTATTCTACTCCACTGCAACTTCAGAGAGATAAAAATAGATGCGATCT
64 GGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTAGATGCGATCT
* *
53110736 ACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAG
128 GCTCTCTGCAACTTCAGAGAGATAAGATCCAAGTTTTTAATCCACTCCACTGCAACTTCAGGAAG
*
53110801 ATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGT
193 ATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
* * * **
53110866 CTTCCTTTCTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGG
258 CTGCCTCTCTGCAACTTCAGGAGGATAAGACTTGC-TAC-TAATCTGCTCCACTGCAACTTCAAA
* *
53110931 GAAATAAGATTTGCCATCTTCAGTCTTC
321 GAAATAAGATATGCCATCTTCAATC-TC
** * * *
53110959 CT-TTCTGCAACTTCAGGAGGATAAGACTTG-CTTACTT-AGTCTG-CTC-CACTGCAACTTCAG
1 CTCCACTACAACTTCAGGA-GATAAGATTTGCCAT-CTTCAGTCTGCCTCTCA--GCAACTTCAG
* * * * *
53111019 G-GAAATAAGATTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTCTGGAGGATAAGACTTGATG
62 GAG-GATAAGACTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGA-GATAAGACTAGATG
* * *
53111081 CGATCTG----C-GCAACTTCAGAGTGATAAGATTCAA-TATTTTAATCCACTCCACTACAACTT
122 CGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGT-TTTTAATCCACTCCACTGCAACTT
* * *
53111140 CAGGAAGATAGGA-TATCGACTTTAACCTGCTTCACTGCAACTTCAGAGAGATAAGATTTGCCAT
186 CAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT
* * * *
53111204 CTTCAGTCTGCCTCTTTGCAACTTCAGGAGGATAAGACTTGCTTTCTTAGTCTGCTCCATTGCAA
251 CTTCAGTCTGCCTCTCTGCAACTTCAGGAGGATAAGACTTGC-TAC-TAATCTGCTCCACTGCAA
53111269 CTTCA
314 CTTCA
53111274 GGGAGATAAG
Statistics
Matches: 1387, Mismatches: 206, Indels: 218
0.77 0.11 0.12
Matches are distributed among these distances:
339 1 0.00
340 20 0.01
341 28 0.02
342 11 0.01
343 34 0.02
344 322 0.23
345 310 0.22
346 427 0.31
347 34 0.02
348 20 0.01
349 19 0.01
350 87 0.06
351 67 0.05
352 4 0.00
353 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (347 bp):
CTCCACTACAACTTCAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGAGG
ATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGAGATAAGACTAGATGCGATCTGCT
CTCTGCAACTTCAGAGAGATAAGATCCAAGTTTTTAATCCACTCCACTGCAACTTCAGGAAGATA
GGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
CCTCTCTGCAACTTCAGGAGGATAAGACTTGCTACTAATCTGCTCCACTGCAACTTCAAAGAAAT
AAGATATGCCATCTTCAATCTC
Found at i:53110748 original size:129 final size:127
Alignment explanation
Indices: 53110478--53110763 Score: 353
Period size: 129 Copynumber: 2.2 Consensus size: 127
53110468 CTTTAACCTG
*
53110478 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAG
1 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAG
* * * * * **
53110543 GATAAGACTTGCTGCAATCTGCTCTCTGCAACTTCAAAGAGATAAAATCCAAGGTTTTAATCCA
66 GATAAGACTTACTACAATCTACTCACTGCAACTTCAAAGAGATAAAAT-C-AGGATGCAATCCA
53110607 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAG
1 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAG
* * *
53110672 GATAAGACTTACTTACTTATTCTACTCCACTGCAACTTCAGAGAGATAAAAAT-A-GATGCGATC
66 GATAAGACTTAC-TAC--AATCTACT-CACTGCAACTTCAAAGAGAT-AAAATCAGGATGCAATC
*
53110735 TA
126 CA
* * *
53110737 CT-CTCTGCAACTTCAGAGAGATAAGAT
1 CTCCACTACAACTTCAGGGAGATAAGAT
53110764 CCAAGGTTTT
Statistics
Matches: 137, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
129 97 0.71
130 10 0.07
131 1 0.01
132 6 0.04
133 18 0.13
134 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (127 bp):
CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAG
GATAAGACTTACTACAATCTACTCACTGCAACTTCAAAGAGATAAAATCAGGATGCAATCCA
Found at i:53110792 original size:84 final size:85
Alignment explanation
Indices: 53110559--53110796 Score: 234
Period size: 89 Copynumber: 2.8 Consensus size: 85
53110549 ACTTGCTGCA
* * * *
53110559 ATCTGCTCTCTGCAACTTCAAAGAGATAAAATCCAAGGTTTTAATCCACTCCACTACAACTTCAG
1 ATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAG
* * * *
53110624 GGAGATAAGATTTGCCATCTTC
66 AGAGATAAAAATAG-CATC-TC
* ** * * *
53110646 AGTCTGCCTCTCTGCAACTTCAG-GAGGATAAGA-CTTA-CTTACTTATTCTACTCCACTGCAAC
1 A-TCT-ACTCTCTGCAACTTCAGAGA-GATAAGATCCAAGGTT--TTAATCCACTCCACTGCAAC
*
53110708 TTCAGAGAGATAAAAATAG-ATGC-G
61 TTCAGAGAGATAAAAATAGCAT-CTC
53110732 ATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAG
1 ATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAG
53110797 GAAGATAGGA
Statistics
Matches: 122, Mismatches: 20, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
84 46 0.38
85 7 0.06
86 3 0.02
87 5 0.04
88 8 0.07
89 53 0.43
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (85 bp):
ATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAG
AGAGATAAAAATAGCATCTC
Found at i:53110851 original size:563 final size:561
Alignment explanation
Indices: 53109809--53111376 Score: 1922
Period size: 563 Copynumber: 2.8 Consensus size: 561
53109799 ACTTCAGGTG
* *
53109809 GATAAGACTTAATGCGATCTGTTCTCTGTAACTTCAGAAAGATAAGATCCAAGATTTTAATCCAC
1 GATAAGACTTAATGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCCAAGATTTTAATCCAC
*
53109874 TCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
66 TCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTACAACTTCAGGGAGA
*
53109939 TAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAGGATAAGACTTGATGCGATCTGC
131 TAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAGGATAAGACTTGATGCAATCTGC
* * *
53110004 TCTCTGCAACTTCAGAGATAAGATCCATGGTTTTAATCCACTCCACTGCAACTTCAAGGAGATAA
196 TCTCTGCAACTTCAGAGATAAAATCCAAGGTTTTAATCCACTCCACTACAACTTCAAGGAGATAA
* * *
53110069 GATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAGGATAAGACTTGCTTTCTTAGTCTAC
261 GATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAGGATAAGACTTACTTACTTAGTCTAC
* * * * * *
53110134 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGTAACTTCAGAGAGATAAG
326 TCCACTGCAACTTCAGAGAGATAAAAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAG
*
53110199 ATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGTTC
391 ATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTC
* * *
53110264 CACTACAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCTCAGTAACTTTAGGAGGAT
456 CACTACAACTTCAAGGAAATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGAGGAT
53110329 AAGACTTGCTTACTTAGTCTGCTCCACTGCAACCTCAAGGA
521 AAGACTTGCTTACTTAGTCTGCTCCACTGCAACCTCAAGGA
* * *
53110370 GATAAGAC-TAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCCAAGTTTTTAATCCA
1 GATAAGACTTA-ATGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCCAAGATTTTAATCCA
*
53110434 CTCCACTGTAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTACAACTTCAGGGAG
65 CTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTACAACTTCAGGGAG
*
53110499 ATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAGGATAAGACTTGCTGCAATCTG
130 ATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAGGATAAGACTTGATGCAATCTG
*
53110564 CTCTCTGCAACTTCAAAGAGATAAAATCCAAGGTTTTAATCCACTCCACTACAACTTCAGGGAGA
195 CTCTCTGCAACTTC--AGAGATAAAATCCAAGGTTTTAATCCACTCCACTACAACTTCAAGGAGA
*
53110629 TAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAGGATAAGACTTACTTACTTATTC
258 TAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAGGATAAGACTTACTTACTTAGTC
53110694 TACTCCACTGCAACTTCAGAGAGATAAAAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
323 TACTCCACTGCAACTTCAGAGAGATAAAAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
53110759 AAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTG
388 AAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTG
* * * * *
53110824 CTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTTCCTTTCTGCAACTTCAGGAG
453 CTCCACTACAACTTCAAGGAAATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGAG
* *
53110889 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
518 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACCTCAAGGA
* * * * ** *
53110933 AATAAGA-TT--TGCCATCTTCAGTCTTCCTTTCTGCAACTTCAGGAGGATAAGA--CTTGCTTA
1 GATAAGACTTAATGCGATC-T--G-C-T-C--TCTGCAACTTCAGAAAGATAAGATCCAAGATT-
* ** * * **
53110993 CTTAGTCTGCTCCACTGCAACTTCAGGGAA-ATAAGA-T-TTGCCATCTTCAGTCTGC-CTCACT
57 -TTAATCCACTCCACTGCAACTTCA-GGAAGATAGGATTATTGGC-T-TT-AACCTGCTC-CACT
* * * * *
53111054 GCAACTTC-TGGAGGATAAGACTTG--A---T--G-C-G-ATCTGC-GCAACTTCA-GAGTGATA
116 ACAACTTCAGGGA-GATAAGATTTGCCATCTTCAGTCTGCCTCT-CTGCAACTTTAGGAG-GATA
* ** ** * * * **
53111106 AGA-TTCAATATTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATAT-C--GACTTTAA-C
178 AGACTT---GA-TGCAATCTGCT-CTCTGCAACTTCA-G-AGATA--AAATCCAAGGTTTTAATC
* * * *
53111166 CTGCTTCACTGCAACTTC-AGAGAGATAAGATTTGCCATCTTCAGTCTGCCTCTTTGCAACTTCA
234 C-ACTCCACTACAACTTCAAG-GAGATAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCA
* * * * * * *
53111230 GGAGGATAAGACTTGCTTTCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGA
297 GGAGGATAAGACTTACTTACTTAGTCTACTCCACTGCAACTTCAGAGAGATAAAAATAGATGCGA
*
53111295 TCTACTCTCTGCAACTTCAGAGAGATAAGAT-CTA--TTTTAATCCACTCCACTGCAACTTCAGG
362 TCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGG
* * *
53111357 GAGATAGGATCATTGGCTTT
427 AAGATAGGATTATCGGCTTT
53111377 TGATCTATTC
Statistics
Matches: 890, Mismatches: 84, Indels: 68
0.85 0.08 0.07
Matches are distributed among these distances:
558 5 0.01
559 63 0.07
560 10 0.01
561 204 0.23
562 158 0.18
563 351 0.39
564 3 0.00
565 4 0.00
566 9 0.01
567 3 0.00
568 50 0.06
569 30 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (561 bp):
GATAAGACTTAATGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCCAAGATTTTAATCCAC
TCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCACTACAACTTCAGGGAGA
TAAGATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTTAGGAGGATAAGACTTGATGCAATCTGC
TCTCTGCAACTTCAGAGATAAAATCCAAGGTTTTAATCCACTCCACTACAACTTCAAGGAGATAA
GATTTGCCATCTTCAGTCTGCCTCTCTGCAACTTCAGGAGGATAAGACTTACTTACTTAGTCTAC
TCCACTGCAACTTCAGAGAGATAAAAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAG
ATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTC
CACTACAACTTCAAGGAAATAAGATTTGCCATCTTCAGTCTGCCTCTCAGCAACTTCAGGAGGAT
AAGACTTGCTTACTTAGTCTGCTCCACTGCAACCTCAAGGA
Found at i:53110880 original size:173 final size:172
Alignment explanation
Indices: 53110355--53111244 Score: 886
Period size: 173 Copynumber: 5.2 Consensus size: 172
53110345 GTCTGCTCCA
* * *
53110355 CTGCAACCTCAAGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATC
1 CTGCAACTTC-AGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATC
* *
53110419 CAAGTTTTTAATCCACTCCACTGTAACTTCAGGAAGATAGGATTATTGGCTTTAACCTGCTCCAC
65 CAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTA-TGGCTTTAACCTGCTCCAC
*
53110484 TACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCT
129 TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCT
* * * * *
53110528 CTGCAACTTTAGGAGGATAAGACTTGCTGCAATCTGCTCTCTGCAACTTCAAAGAGATAAAATCC
1 CTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
* * * * **
53110593 AAGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAAGATT-TGCCATCTTCAGTCTGC-CTC
66 AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATGGC-T-TT-AACCTGCTC-C
* * * * * * *
53110656 TCTGCAACTTCA-GGAGGATAAGACTT-ACTTACTT-ATTCT-ACTCCA
127 ACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAGTCTGCCT-CT
* * * *
53110701 CTGCAACTTCA-GAGAGATAAAAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGAG-GATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATC
53110765 CAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCAC
65 CAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAT-GGCTTTAACCTGCTCCAC
* * *
53110830 TGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTTCCTTT
129 TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCT
* * * * * *
53110874 CTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
1 CTGCAACTTCAGGAGGATAAGACTTG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAG
* * ** * * *
53110939 ATTTGCC-A--TCTTCAGTCTTC-CT-TTCTGCAACTTCAGGAGGATAAGACT-T-GCTTACTTA
62 A--T-CCAAGGT-TTTAATC--CACTCCACTGCAACTTCAGGAAGATAGGATTATGGC-T--TTA
** * *
53110997 GTCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCA
118 ACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCT
* * *
53111052 CTGCAACTTCTGGAGGATAAGACTTGATGCGATCTG----C-GCAACTTCAGAGTGATAAGATTC
1 CTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
** * * *
53111112 AATATTTTAATCCACTCCACTACAACTTCAGGAAGATAGGA-TATCGACTTTAACCTGCTTCACT
66 AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAT-GGCTTTAACCTGCTCCACT
*
53111176 GCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTGCCTCT
130 GCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCT
*
53111219 TTGCAACTTCAGGAGGATAAGACTTG
1 CTGCAACTTCAGGAGGATAAGACTTG
53111245 CTTTCTTAGT
Statistics
Matches: 585, Mismatches: 94, Indels: 82
0.77 0.12 0.11
Matches are distributed among these distances:
166 2 0.00
167 81 0.14
168 25 0.04
169 19 0.03
170 2 0.00
171 3 0.01
172 38 0.06
173 226 0.39
174 37 0.06
175 9 0.02
176 7 0.01
177 25 0.04
178 104 0.18
179 4 0.01
180 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (172 bp):
CTGCAACTTCAGGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCC
AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATGGCTTTAACCTGCTCCACTG
CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCT
Found at i:53110936 original size:89 final size:89
Alignment explanation
Indices: 53110821--53111284 Score: 494
Period size: 89 Copynumber: 5.3 Consensus size: 89
53110811 CGGCTTTAAC
*
53110821 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTTCCTTTCTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTTTCTGCAACTTCAG
53110886 GAGGATAAGACTTGCTTACTTAGT
66 GAGGATAAGACTTGCTTACTTAGT
*
53110910 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTTCCTTTCTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTTTCTGCAACTTCAG
53110975 GAGGATAAGACTTGCTTACTTAGT
66 GAGGATAAGACTTGCTTACTTAGT
** *
53110999 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCTG
1 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTTTCTGCAACTTCAG
53111064 GAGGATAAGACTTG---A--T-G-
66 GAGGATAAGACTTGCTTACTTAGT
* ** * ** * * * * ** *
53111081 C-GATCTGC-GCAACTTCAGAGTGATAAGA-TT-CAATATTTTAATC--CACTCCACTACAACTT
1 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCAT-CTTCAGTCTGC-CT-TTCTGCAACTT
* * * **
53111140 CAGGAAGATAGGA-TAT-C-GACTTTAAC
63 CAGGAGGATAAGACT-TGCTTAC-TTAGT
* * *
53111166 CTGCTTCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTGCCTCTT-TGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCT-TTCTGCAACTTCA
*
53111230 GGAGGATAAGACTTGCTTTCTTAGT
65 GGAGGATAAGACTTGCTTACTTAGT
* *
53111255 CTGCTCCATTGCAACTTCAGGGAGATAAGA
1 CTGCTCCACTGCAACTTCAGGGAAATAAGA
53111285 CTAGATGCGA
Statistics
Matches: 315, Mismatches: 40, Indels: 40
0.80 0.10 0.10
Matches are distributed among these distances:
77 1 0.00
78 6 0.02
79 28 0.09
80 18 0.06
81 4 0.01
82 1 0.00
83 2 0.01
84 1 0.00
85 1 0.00
86 4 0.01
87 19 0.06
88 26 0.08
89 202 0.64
90 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTTTCTGCAACTTCAG
GAGGATAAGACTTGCTTACTTAGT
Found at i:53111228 original size:45 final size:43
Alignment explanation
Indices: 53111166--53111286 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 43
53111156 CGACTTTAAC
* * *
53111166 CTGCTTCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGT
1 CTGCTCCATTGCAACTTCAG-GAGATAAGACTTGCCATCTT-AGT
* **
53111211 CTGC-CTCTTTGCAACTTCAGGAGGATAAGACTTGCTTTCTTAGT
1 CTGCTC-CATTGCAACTTCAGGA-GATAAGACTTGCCATCTTAGT
53111255 CTGCTCCATTGCAACTTCAGGGAGATAAGACT
1 CTGCTCCATTGCAACTTCA-GGAGATAAGACT
53111287 AGATGCGATC
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
44 30 0.46
45 35 0.54
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (43 bp):
CTGCTCCATTGCAACTTCAGGAGATAAGACTTGCCATCTTAGT
Found at i:53119455 original size:24 final size:24
Alignment explanation
Indices: 53119427--53119472 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
53119417 ATCATTTTTT
* *
53119427 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
53119451 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
53119473 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:53120230 original size:41 final size:41
Alignment explanation
Indices: 53120185--53120263 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
53120175 AGCCTCGTTT
53120185 TGTCTCTGCATTTCTTGGAATTTCTGTTCCCATTTATTGAC
1 TGTCTCTGCATTTCTTGGAATTTCTGTTCCCATTTATTGAC
53120226 TGTCTCTGCATTTCTTGGAATTTCTGTTCCCATTTATT
1 TGTCTCTGCATTTCTTGGAATTTCTGTTCCCATTTATT
53120264 AACTTTGTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (41 bp):
TGTCTCTGCATTTCTTGGAATTTCTGTTCCCATTTATTGAC
Found at i:53120259 original size:22 final size:22
Alignment explanation
Indices: 53120193--53120260 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
53120183 TTTGTCTCTG
53120193 CATTTCTTGGAATTTCTGTTCC
1 CATTTCTTGGAATTTCTGTTCC
* * * * *
53120215 CATTTATT-GACTGTCT-CT-G
1 CATTTCTTGGAATTTCTGTTCC
53120234 CATTTCTTGGAATTTCTGTTCC
1 CATTTCTTGGAATTTCTGTTCC
53120256 CATTT
1 CATTT
53120261 ATTAACTTTG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
21 7 0.21
22 12 0.36
ACGTcount: A:0.15, C:0.22, G:0.13, T:0.50
Consensus pattern (22 bp):
CATTTCTTGGAATTTCTGTTCC
Found at i:53123249 original size:15 final size:15
Alignment explanation
Indices: 53123240--53123272 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
53123230 CAAATGCTAT
53123240 AATAATAAATACAAC
1 AATAATAAATACAAC
*
53123255 AATAATAAATACATC
1 AATAATAAATACAAC
53123270 AAT
1 AAT
53123273 GGCATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:53123298 original size:13 final size:12
Alignment explanation
Indices: 53123280--53123318 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
53123270 AATGGCATGA
53123280 AAATAATATAAAC
1 AAATAA-ATAAAC
53123293 AAATAAATAAAC
1 AAATAAATAAAC
53123305 GAAATAAA-AAAC
1 -AAATAAATAAAC
53123317 AA
1 AA
53123319 TAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:53123867 original size:25 final size:27
Alignment explanation
Indices: 53123810--53123867 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
53123800 ATATATTTTT
*
53123810 AAAAAAATAATTAAATATGAAAAAGAAT
1 AAAAAAATAATTAAATA-GAAAAAGAAC
*
53123838 AAAAAAATAATT-AATA-AAAAATAAC
1 AAAAAAATAATTAAATAGAAAAAGAAC
*
53123863 GAAAA
1 AAAAA
53123868 TGAAAAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.41
27 4 0.15
28 12 0.44
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (27 bp):
AAAAAAATAATTAAATAGAAAAAGAAC
Found at i:53124783 original size:5 final size:5
Alignment explanation
Indices: 53124773--53124804 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
53124763 AGAAATCTGC
53124773 TTGAT TTGAT TTGAT TTGAT TTGAT TTGAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TTGAT TT
53124805 TCTTTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (5 bp):
TTGAT
Found at i:53126612 original size:17 final size:17
Alignment explanation
Indices: 53126569--53126612 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
53126559 CCCAAATAGT
**
53126569 AATTAATTAATTAATTA
1 AATTAATTTTTTAATTA
53126586 AATTAATTTTTTAATTA
1 AATTAATTTTTTAATTA
53126603 AATT-ATTTTT
1 AATTAATTTTT
53126613 CAATCCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTAATTTTTTAATTA
Found at i:53128730 original size:14 final size:14
Alignment explanation
Indices: 53128711--53128764 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
53128701 AGTTTTTTGT
53128711 CATAATAAAATTAC
1 CATAATAAAATTAC
*
53128725 CATAATAAAACATAC
1 CATAATAAAA-TTAC
53128740 TCATAAT-AAATCTAC
1 -CATAATAAAAT-TAC
*
53128755 AATAATAAAA
1 CATAATAAAA
53128765 CATACTCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 15 0.45
15 12 0.36
16 6 0.18
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (14 bp):
CATAATAAAATTAC
Found at i:53128746 original size:30 final size:30
Alignment explanation
Indices: 53128710--53128787 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
53128700 GAGTTTTTTG
53128710 TCATAATAAAATTACCATAATAAAACATAC
1 TCATAATAAAATTACCATAATAAAACATAC
*
53128740 TCATAAT-AAATCTACAATAATAAAACATAC
1 TCATAATAAAAT-TACCATAATAAAACATAC
* *
53128770 TCATGAGTAAATTTACCA
1 TCAT-AATAAAATTACCA
53128788 AGTTTATTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.10
30 28 0.68
31 6 0.15
32 3 0.07
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (30 bp):
TCATAATAAAATTACCATAATAAAACATAC
Found at i:53130164 original size:52 final size:52
Alignment explanation
Indices: 53130099--53130227 Score: 195
Period size: 52 Copynumber: 2.4 Consensus size: 52
53130089 AATCAGTGAT
* *
53130099 TGAAAGAACTACATTATCACATAAACTTAACAGATTAATCATACAAGGTTTA
1 TGAAAGAAATACATTATCAAATAAACTTAACAGATTAATCATACAAGGTTTA
53130151 TGAAAGAAATACATTATCAAATAAACTTAACAGATTAATCATACAAGGTTTA
1 TGAAAGAAATACATTATCAAATAAACTTAACAGATTAATCATACAAGGTTTA
* * *
53130203 TTAAATAGATTACATGTATCAAATA
1 TGAAAGA-AATACAT-TATCAAATA
53130228 TACATAAATC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 55 0.79
53 6 0.09
54 9 0.13
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (52 bp):
TGAAAGAAATACATTATCAAATAAACTTAACAGATTAATCATACAAGGTTTA
Found at i:53141274 original size:87 final size:87
Alignment explanation
Indices: 53141170--53141385 Score: 328
Period size: 87 Copynumber: 2.5 Consensus size: 87
53141160 TTTGAAATTA
*
53141170 TCACTTATTCAACTTGAAAACTTTAAGTTTAATGATGAAAAAGAAGATGAAAATAAGTTTAAAA-
1 TCACTTATCCAACTTGAAAACTTTAAGTTTAATGATGAAAAAGAAGATGAAAATAAGTTTAAAAG
*
53141234 AAGGATTTTCTACAACATTTTTC
66 AAAG-TTTTCTACAACATTTTTC
* * *
53141257 TCGCTTATCCAACTTGAAAA-TCTTAAGTTTAACGAGGAAAAAGAAGATGAAAATAAGTTTAAAA
1 TCACTTATCCAACTTGAAAACT-TTAAGTTTAATGATGAAAAAGAAGATGAAAATAAGTTTAAAA
*
53141321 GAAAGTTTTCTACAACATTTTTT
65 GAAAGTTTTCTACAACATTTTTC
* *
53141344 TCACTTATCCAACTTGAAAACTATAAATTTAATGATGAAAAA
1 TCACTTATCCAACTTGAAAACTTTAAGTTTAATGATGAAAAA
53141386 AAAAGACAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
86 1 0.01
87 110 0.96
88 4 0.03
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (87 bp):
TCACTTATCCAACTTGAAAACTTTAAGTTTAATGATGAAAAAGAAGATGAAAATAAGTTTAAAAG
AAAGTTTTCTACAACATTTTTC
Found at i:53144780 original size:5 final size:5
Alignment explanation
Indices: 53144770--53144796 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
53144760 AATTTATAAA
53144770 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
53144797 CTTAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:53157952 original size:17 final size:18
Alignment explanation
Indices: 53157903--53157952 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
53157893 GCATTGCTCA
**
53157903 AATTTTCTTGCAAATATC
1 AATTTTCTTTTAAATATC
53157921 AATTTTCTTTT-AATATC
1 AATTTTCTTTTAAATATC
53157938 -ATTTT-TTATTAAATA
1 AATTTTCTT-TTAAATA
53157953 AATATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 2 0.07
16 7 0.25
17 10 0.36
18 9 0.32
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTTCTTTTAAATATC
Found at i:53163452 original size:2 final size:2
Alignment explanation
Indices: 53163445--53163653 Score: 391
Period size: 2 Copynumber: 104.5 Consensus size: 2
53163435 TTTAATTGTA
53163445 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
53163487 TG TG TA TT TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
53163529 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
53163571 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
53163613 TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
53163654 TTGGTTGTGA
Statistics
Matches: 202, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 202 1.00
ACGTcount: A:0.01, C:0.00, G:0.48, T:0.51
Consensus pattern (2 bp):
TG
Found at i:53167058 original size:44 final size:44
Alignment explanation
Indices: 53167005--53167099 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
53166995 TACGAAAAAA
* *
53167005 TATATAATATGCATGTATAATATATTAAGAAACTAAAAATTAGAC
1 TATA-AATATGCATATATAATATATCAAGAAACTAAAAATTAGAC
* *
53167050 TATAAATATGTATATATAATATATCAAGAAATTAAAAATTAGAC
1 TATAAATATGCATATATAATATATCAAGAAACTAAAAATTAGAC
53167094 TATAAA
1 TATAAA
53167100 CATATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (44 bp):
TATAAATATGCATATATAATATATCAAGAAACTAAAAATTAGAC
Found at i:53167108 original size:44 final size:44
Alignment explanation
Indices: 53167020--53167109 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
53167010 AATATGCATG
* * *
53167020 TATAATATATTAAGAAACTAAAAATTAGACTATAAATATGTATA
1 TATAATATATCAAGAAACTAAAAATTAGACTATAAACATATATA
*
53167064 TATAATATATCAAGAAATTAAAAATTAGACTATAAACATATATA
1 TATAATATATCAAGAAACTAAAAATTAGACTATAAACATATATA
53167108 TA
1 TA
53167110 CGCAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (44 bp):
TATAATATATCAAGAAACTAAAAATTAGACTATAAACATATATA
Found at i:53171381 original size:19 final size:19
Alignment explanation
Indices: 53171308--53171387 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
53171298 AATTTTTGAG
*
53171308 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
**
53171327 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
53171346 GATATATGCAATCTTAGTTAT
1 G--ATATGCAATCTTAGATAT
*
53171367 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
53171386 GA
1 GA
53171388 AAAAAAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 35 0.69
21 16 0.31
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:53171927 original size:22 final size:22
Alignment explanation
Indices: 53171892--53171933 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
53171882 TATATATATA
53171892 TTTTTAAAACGAATATTTTCTT
1 TTTTTAAAACGAATATTTTCTT
* *
53171914 TTTTTTAAATGAATATTTTC
1 TTTTTAAAACGAATATTTTC
53171934 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTTTAAAACGAATATTTTCTT
Found at i:53176533 original size:12 final size:12
Alignment explanation
Indices: 53176518--53176542 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53176508 CAAAAAAAAG
53176518 AGGAAAAAGGAA
1 AGGAAAAAGGAA
53176530 AGGAAAAAGGAA
1 AGGAAAAAGGAA
53176542 A
1 A
53176543 AAAGTAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGGAAAAAGGAA
Found at i:53176558 original size:21 final size:21
Alignment explanation
Indices: 53176511--53176558 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
53176501 AATATTTCAA
* *
53176511 AAAAAAGAGGAAAAAGGAAAG
1 AAAAAAGAGAAAAAAGAAAAG
*
53176532 GAAAAAG-GAAAAAAGTAAAAG
1 AAAAAAGAGAAAAAAG-AAAAG
53176553 AAAAAA
1 AAAAAA
53176559 TAAAAGGAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAGAAAAG
Found at i:53176563 original size:20 final size:20
Alignment explanation
Indices: 53176511--53176563 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
53176501 AATATTTCAA
*
53176511 AAAAAAGAGGAAAAAGGAAAGG
1 AAAAAAGA--AAAAAGGAAAAG
* *
53176533 AAAAAGGAAAAAAGTAAAAG
1 AAAAAAGAAAAAAGGAAAAG
*
53176553 AAAAAATAAAA
1 AAAAAAGAAAA
53176564 GGAGAGGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 19 0.73
22 7 0.27
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (20 bp):
AAAAAAGAAAAAAGGAAAAG
Found at i:53177961 original size:132 final size:132
Alignment explanation
Indices: 53177776--53178496 Score: 1208
Period size: 132 Copynumber: 5.5 Consensus size: 132
53177766 ATCAGTGAAA
* * * *
53177776 ATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCA
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
*
53177841 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTCGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
66 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
53177906 AG
131 AG
* *
53177908 ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCA
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
* *
53177973 AGATAATGGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
66 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
*
53178038 AA
131 AG
53178040 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
*
53178105 AGATAGTGGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
66 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
*
53178170 AA
131 AG
*
53178172 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATATTTCCA
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
* * * *
53178237 AGATAGTGGGAAGCAGATTTAAGCCCCCAAGCCTTGTTTCCCTGAGCAGCAGCGGAGTAGGTTGA
66 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
53178302 AG
131 AG
*
53178304 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATATTTCCA
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
* * * *
53178369 AGATAGTGGGAAGCAGATTTAAGCCCCCAAGCCTTGTTTCCCTGAGCAGCAGCGGAGTAGGTTGA
66 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
53178434 AG
131 AG
* * * *
53178436 ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATCTT
1 ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTT
53178497 CCTGAAGTTG
Statistics
Matches: 566, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 566 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
ATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCA
AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAA
AG
Found at i:53177963 original size:44 final size:44
Alignment explanation
Indices: 53177915--53178229 Score: 132
Period size: 44 Copynumber: 7.2 Consensus size: 44
53177905 AAGATTGTAG
*
53177915 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACAGCGA
* * * * *
53177959 ATCTTATCTTTCC-AAG-A-TAATGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCTAAGACAGCGA
* * * * * * * **
53178002 AGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT-TAA-AAATTGTA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACAGCG-A
* * *
53178046 GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACAGCGA
* * * *
53178091 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCTAAGACAGCGA
* * * * * * * **
53178134 AGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGT-TAA-AAATTGTA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACAGCG-A
* * *
53178178 GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACAGCGA
53178223 ATCTTAT
1 ATCTTAT
53178230 ATTTCCAAGA
Statistics
Matches: 187, Mismatches: 60, Indels: 48
0.63 0.20 0.16
Matches are distributed among these distances:
42 9 0.05
43 23 0.12
44 128 0.68
45 20 0.11
46 7 0.04
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCTAAGACAGCGA
Found at i:53178547 original size:44 final size:44
Alignment explanation
Indices: 53178443--53178954 Score: 280
Period size: 44 Copynumber: 11.8 Consensus size: 44
53178433 AAGATTGTAG
** * * *
53178443 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAA-ATGGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGATGAC-A
* *
53178487 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATGACA
* * *
53178531 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-ATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATGACA
** * * * *
53178574 GATCTTATCTATCTAAAGTTACAG-AGAGCAGA-T--CGCAT--CTA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-ATGAC-A
* * * *
53178615 GTCTTATCTCCCTGAAGTTGCGGTGGA-CAAGACT-AAG-TAAGCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAGATGA-CA
* * * *
53178658 AGTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGCAA
1 A-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGATGAC-A
* ** *
53178704 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATGACA
* * * *
53178748 ATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAA-ATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATGACA
* * * *
53178791 GATCTTATCTCTCTGAAGTTGTAG-AGAGCAGA-T--CGCAT--CTA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-ATGAC-A
* * * * * *
53178832 GTCTTATCTCGCTGAAGTTGCAGAGGAGCAGACTAAGGAAG-CA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATGACA
* * *
53178875 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 A-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGATGACA
*
53178920 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
53178955 GAAGCACTAA
Statistics
Matches: 363, Mismatches: 68, Indels: 73
0.72 0.13 0.14
Matches are distributed among these distances:
40 40 0.11
41 15 0.04
42 8 0.02
43 29 0.08
44 179 0.49
45 83 0.23
46 9 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATGACA
Found at i:53178579 original size:396 final size:396
Alignment explanation
Indices: 53177781--53178583 Score: 1179
Period size: 396 Copynumber: 2.0 Consensus size: 396
53177771 TGAAAATTGT
* * *
53177781 AGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCAAAGACGGCGAATCTTATATTTCCAAGATA
53177846 GTGGGAAGCAGATTTAAGCCACCAAGCCTCGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTCGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATT
* *
53177911 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGA
131 GTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCGAATCTTATATTTCCAAGA
*
53177976 TAATGGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAAA
196 TAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAAA
* *
53178041 TTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAA
261 TTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAACGGCAAATCTTATCTTTCCAA
* * *
53178106 GATAGTGGGAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAA
326 GATAGTGGGAAGCAGATTAAAGCCACCAAGTCCTATCTCCCTGAGCAGCAGCGGAGAAGGTTAAA
**
53178171 AATTGT
391 AATTAC
* *
53178177 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGATA
1 AGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCAAAGACGGCGAATCTTATATTTCCAAGATA
* * * * *
53178242 GTGGGAAGCAGATTTAAGCCCCCAAGCCTTGTTTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTCGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATT
*
53178307 GTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATATTTCCAAGA
131 GTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCGAATCTTATATTTCCAAGA
* * * * * *
53178372 TAGTGGGAAGCAGATTTAAGCCCCCAAGCCTTGTTTCCCTGAGCAGCAGCGGAGTAGGTTGAAGA
196 TAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAAA
* *
53178437 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTTATC-TTCCTG
261 TTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAACGGCAAATCTTATCTTTCC--
* * ** * *
53178501 AAGTTGCAGT-GG-AGCAGATTAAAGCTGA-CAA-TCCTATCTCCCTGAAGTTGCAGTGGAG-CG
324 AAGAT--AGTGGGAAGCAGATTAAAGC-CACCAAGTCCTATCTCCCTG-AGCAGCAGCGGAGAAG
53178561 GATT-AAAATTAC
385 G-TTAAAAATTAC
53178573 AGATCTTATCT
1 AGATCTTATCT
53178584 ATCTAAAGTT
Statistics
Matches: 365, Mismatches: 35, Indels: 14
0.88 0.08 0.03
Matches are distributed among these distances:
395 4 0.01
396 324 0.89
397 31 0.08
398 3 0.01
399 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (396 bp):
AGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCAAAGACGGCGAATCTTATATTTCCAAGATA
GTGGGAAGCAGATTTAAGCCACCAAGCCTCGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATT
GTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCGAATCTTATATTTCCAAGA
TAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAAA
TTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAACGGCAAATCTTATCTTTCCAA
GATAGTGGGAAGCAGATTAAAGCCACCAAGTCCTATCTCCCTGAGCAGCAGCGGAGAAGGTTAAA
AATTAC
Found at i:53178724 original size:217 final size:217
Alignment explanation
Indices: 53178480--53178959 Score: 782
Period size: 217 Copynumber: 2.2 Consensus size: 217
53178470 CAGATCGAAA
* *
53178480 ATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGACAATCCTATCTCCCTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTG
* *
53178545 AAGTTGCAGTGGAGCGGATTAAAATTACAGATCTTATCTATCTAAAGTTACAGAGAGCAGATCGC
66 AAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTATCTAAAGTTACAGAGAGCAGATCGC
* * *
53178610 ATCTAGTCTTATCTCCCTGAAGTTGCGGTGGA-CAAGACTAAGTAAGCAAGTCTTATCCTCCTGA
131 ATCTAGTCTTATCTCCCTGAAGTTGCAGAGGAGC-AGACTAAGGAAGCAAGTCTTATCCTCCTGA
53178674 AGTTACAGTGAGGCAGACTGAAG
195 AGTTACAGTGAGGCAGACTGAAG
* *
53178697 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTG
* * **
53178762 AAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCGC
66 AAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTATCTAAAGTTACAGAGAGCAGATCGC
*
53178827 ATCTAGTCTTATCTCGCTGAAGTTGCAGAGGAGCAGACTAAGGAAGCAAGTCTTATCCTCCTGAA
131 ATCTAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTAAGGAAGCAAGTCTTATCCTCCTGAA
*
53178892 GTTGCAGTGAGGCAGACTGAAG
196 GTTACAGTGAGGCAGACTGAAG
* * *
53178914 ATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
53178960 ACTAATTCCT
Statistics
Matches: 243, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 242 1.00
218 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (217 bp):
ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTG
AAGTTGCAGTAGAGCGGATTAAAATCACAGATCTTATCTATCTAAAGTTACAGAGAGCAGATCGC
ATCTAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTAAGGAAGCAAGTCTTATCCTCCTGAA
GTTACAGTGAGGCAGACTGAAG
Found at i:53179186 original size:19 final size:19
Alignment explanation
Indices: 53179162--53179201 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
53179152 AATTTTTGAG
*
53179162 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGAGAT
53179181 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGAGAT
53179200 GA
1 GA
53179202 AAAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGAGAT
Found at i:53179733 original size:23 final size:22
Alignment explanation
Indices: 53179703--53179745 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
53179693 CATATATATA
*
53179703 TTTTTTAAAACGAATATTTTCC
1 TTTTTTTAAACGAATATTTTCC
*
53179725 TTTTTTTAAATGAATATTTTC
1 TTTTTTTAAACGAATATTTTC
53179746 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTTTTAAACGAATATTTTCC
Found at i:53180389 original size:4 final size:4
Alignment explanation
Indices: 53180380--53180407 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
53180370 TTAAACTAAG
53180380 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
53180408 AGTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:53181273 original size:98 final size:98
Alignment explanation
Indices: 53181153--53181349 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
53181143 TTAAAAATAA
* *
53181153 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
53181218 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
53181251 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
53181316 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
53181349 T
1 T
53181350 TTTATTGTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:53186861 original size:36 final size:36
Alignment explanation
Indices: 53186804--53186889 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
53186794 TGTTGATAAT
*
53186804 GGGAAATGGGAATGGGAGGAGGGAACGGTGGAAGAG
1 GGGAAATGGAAATGGGAGGAGGGAACGGTGGAAGAG
* * *
53186840 GGGAGATGGAAATGGGAGGAGGGCACGGTGG-A-AT
1 GGGAAATGGAAATGGGAGGAGGGAACGGTGGAAGAG
*
53186874 GGGAAATGGGAATGGG
1 GGGAAATGGAAATGGG
53186890 TATTGCATGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
34 15 0.34
35 1 0.02
36 28 0.64
ACGTcount: A:0.31, C:0.03, G:0.55, T:0.10
Consensus pattern (36 bp):
GGGAAATGGAAATGGGAGGAGGGAACGGTGGAAGAG
Found at i:53187013 original size:30 final size:30
Alignment explanation
Indices: 53186977--53187132 Score: 233
Period size: 30 Copynumber: 5.2 Consensus size: 30
53186967 TGTATTTAAA
* *
53186977 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
53187007 ATTTTAAAAATAAAAAAATACATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
53187037 ATTTTAAAAATAAAAAAAATATATGTATTGT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
*
53187068 ATTTTCAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
53187097 ATTCTAGAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
53187127 ATTTTA
1 ATTTTA
53187133 TTAAATGAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.22
30 61 0.54
31 27 0.24
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:53190041 original size:25 final size:25
Alignment explanation
Indices: 53190013--53190092 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
53190003 AAGGTCTTCC
*
53190013 GAGCTGAATAACGAGAAGCTCATGT
1 GAGCTGAATAACGGGAAGCTCATGT
* * *
53190038 GAGCTAAATAATGGGAAGCTCATGC
1 GAGCTGAATAACGGGAAGCTCATGT
* * *
53190063 GAGTTGTATAACGGGAAGCTCATAT
1 GAGCTGAATAACGGGAAGCTCATGT
53190088 GAGCT
1 GAGCT
53190093 TTGGTGTGTC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.23
Consensus pattern (25 bp):
GAGCTGAATAACGGGAAGCTCATGT
Found at i:53193487 original size:111 final size:107
Alignment explanation
Indices: 53193361--53193569 Score: 346
Period size: 111 Copynumber: 1.9 Consensus size: 107
53193351 GTACGAAAAA
* *
53193361 GAAAAAAACAAAAAAAAATTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
1 GAAAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC--
53193426 AAAAAAATTAATTTTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
64 AAAAAAATT--TTTTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
*
53193472 GAAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
1 GAAAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
*
53193537 AGAAATTTTTTTTTTTCGTGTCAGAATCAGATA
66 AAAAATTTTTTTTTTTCGTGTCAGAATCAGATA
53193570 GATTTTTTTT
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
107 26 0.28
109 8 0.09
111 60 0.64
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (107 bp):
GAAAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAA
AAAAATTTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
Found at i:53193947 original size:27 final size:29
Alignment explanation
Indices: 53193886--53193947 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 29
53193876 ATCGCGACAA
* * *
53193886 TTTTA-AATTTTTTATGTTAATTTGTACT
1 TTTTATAATTTATTATGTAAATATGTACT
53193914 TTCTTATAATTTATTATGTAAATAT-T-CT
1 TT-TTATAATTTATTATGTAAATATGTACT
53193942 TTTTAT
1 TTTTAT
53193948 TTTTACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 4 0.14
28 6 0.21
29 4 0.14
30 15 0.52
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTATAATTTATTATGTAAATATGTACT
Found at i:53194699 original size:12 final size:12
Alignment explanation
Indices: 53194681--53194711 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
53194671 AACACCCAAA
53194681 ATTTTTTTTT-T
1 ATTTTTTTTTGT
53194692 ATTTTTTTTTGT
1 ATTTTTTTTTGT
53194704 ATTTTTTT
1 ATTTTTTT
53194712 ATCTGATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (12 bp):
ATTTTTTTTTGT
Found at i:53194768 original size:112 final size:112
Alignment explanation
Indices: 53194415--53194809 Score: 643
Period size: 111 Copynumber: 3.5 Consensus size: 112
53194405 TTTTTAAATT
53194415 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTATTTATTTTTTTTGTATTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTT-TTTATTTTTTTTGTATTT
53194480 TTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTGTTTTCTTTGTACTG
65 TTTTATCTGATTCTGACACG-AAAAAAAATAAA--TT-TTTTCTTTGTACTG
* * *
53194532 TGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTTAATTTTTTCGTATTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTATTTTTTTTGTATTTT
*
53194596 TTTATCTGATTCTGACACGAAAAAAAATAATTTTTTTCTTTGTACTG
66 TTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTCTTTGTACTG
*
53194643 TGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTTTATTTTTTTTTGTATTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTA-TTTTTTTTGTATTT
*
53194708 TTTTATCTGATTCTGACACGAAAAAAAATAAAATTTTT-TTTGTACTG
65 TTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTCTTTGTACTG
* *
53194755 TGTACTGGGTGCCGGCCATTGAGAGGCCAGCACCC-AAATTTTTTTTTTGTTTTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTATTTTTT
53194810 CTTTTTCGTA
Statistics
Matches: 263, Mismatches: 13, Indels: 11
0.92 0.05 0.04
Matches are distributed among these distances:
110 6 0.02
111 64 0.24
112 54 0.21
113 48 0.18
114 11 0.04
115 36 0.14
116 6 0.02
117 38 0.14
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (112 bp):
TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTATTTTTTTTGTATTTT
TTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTCTTTGTACTG
Found at i:53199342 original size:20 final size:20
Alignment explanation
Indices: 53199317--53199357 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
53199307 CGAAACTATG
53199317 TACTATCTATTACTTCCATA
1 TACTATCTATTACTTCCATA
53199337 TACTATCTATTACTTCCATA
1 TACTATCTATTACTTCCATA
53199357 T
1 T
53199358 TCCATTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (20 bp):
TACTATCTATTACTTCCATA
Found at i:53204451 original size:3 final size:3
Alignment explanation
Indices: 53204443--53204479 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
53204433 GTATCTGTGA
53204443 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
53204480 CTTTTCTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:53205783 original size:103 final size:103
Alignment explanation
Indices: 53205604--53205796 Score: 296
Period size: 103 Copynumber: 1.9 Consensus size: 103
53205594 CGATTAGTCA
* **
53205604 TATGATTGTTGTATGATATTCCCAGCCCTAAAGCTCCTTTTGGGTAACATAGAATCTATTCAACA
1 TATGATTGTTGTATGATATTCCCAACCCTAAAGCTCCTTTTAAGTAACATAGAATCTATTCAACA
**
53205669 ATCGCCCAATGTTTAACTGTAGGTGGAATGAGTATTTC
66 ATAACCCAATGTTTAACTGTAGGTGGAATGAGTATTTC
* * * * *
53205707 TATGATTTTTGTATGATATTCCCAATCCTAAAGCTCTTTTTAAGTAACATAGAATTTGTTCAACA
1 TATGATTGTTGTATGATATTCCCAACCCTAAAGCTCCTTTTAAGTAACATAGAATCTATTCAACA
53205772 ATAACCCAATGTTTAACTGTAGGTG
66 ATAACCCAATGTTTAACTGTAGGTG
53205797 CAGACGTGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 80 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (103 bp):
TATGATTGTTGTATGATATTCCCAACCCTAAAGCTCCTTTTAAGTAACATAGAATCTATTCAACA
ATAACCCAATGTTTAACTGTAGGTGGAATGAGTATTTC
Found at i:53216666 original size:42 final size:43
Alignment explanation
Indices: 53216551--53216704 Score: 152
Period size: 42 Copynumber: 3.6 Consensus size: 43
53216541 CATAGGATTC
* * * *
53216551 CGATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GATGGCAT
1 CGATATATGATTACGTGTAAGACCATGTCTAGGACAG-TGGCAT
* *
53216594 CGATTTGA-GATTTACGTGTAAGACCATGTCTAGGACATTGGCAT
1 CGATAT-ATGA-TTACGTGTAAGACCATGTCTAGGACAGTGGCAT
* * *
53216638 C-ATATATGATTATGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATATGATTACGTGTAAGACCATGTCTAGGACAGTGGCAT
* * *
53216680 CGTTATTTGATTACATGTAAGACCA
1 CGATATATGATTACGTGTAAGACCA
53216705 CGTTTGGGAC
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
42 31 0.34
43 30 0.33
44 29 0.32
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
CGATATATGATTACGTGTAAGACCATGTCTAGGACAGTGGCAT
Found at i:53216713 original size:43 final size:42
Alignment explanation
Indices: 53216558--53216722 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 42
53216548 TTCCGATATG
*
53216558 TGATTTCGTGTAAGACCACGTCTGGGACGATGGCATCG-ATT
1 TGATTACGTGTAAGACCACGTCTGGGACGATGGCATCGTATT
* * * *
53216599 TGAGATTTACGTGTAAGACCATGTCTAGGAC-ATTGGCATCATATA
1 T--GA-TTACGTGTAAGACCACGTCTGGGACGA-TGGCATCGTATT
*
53216644 TGATTATGTGTAAGACC-CTGTCTGGGAC-AGTGGCATCGTTATT
1 TGATTACGTGTAAGACCAC-GTCTGGGACGA-TGGCATCG-TATT
* * *
53216687 TGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGATGGCAT
53216723 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 37 0.37
44 30 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGATGGCATCGTATT
Found at i:53219730 original size:42 final size:42
Alignment explanation
Indices: 53219671--53219779 Score: 191
Period size: 42 Copynumber: 2.6 Consensus size: 42
53219661 ACGACCGTGT
53219671 CACATGCCTGTATACTAGGTCGTGTAACTTTCGAAATAGCCC
1 CACATGCCTGTATACTAGGTCGTGTAACTTTCGAAATAGCCC
53219713 CACATGCCTGTATACTAGGTCGTGTAACTTTCGAAATAGCCC
1 CACATGCCTGTATACTAGGTCGTGTAACTTTCGAAATAGCCC
* * *
53219755 CACATGCCTGTGTGCTAGGCCGTGT
1 CACATGCCTGTATACTAGGTCGTGT
53219780 GTTAGGCCAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (42 bp):
CACATGCCTGTATACTAGGTCGTGTAACTTTCGAAATAGCCC
Found at i:53225407 original size:17 final size:18
Alignment explanation
Indices: 53225381--53225417 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
53225371 TCAAATCAAC
*
53225381 TATTTCAAAAA-TAATAT
1 TATTTAAAAAATTAATAT
53225398 TATTTAAAAAATTAATAT
1 TATTTAAAAAATTAATAT
53225416 TA
1 TA
53225418 AATTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTTAAAAAATTAATAT
Found at i:53225545 original size:58 final size:61
Alignment explanation
Indices: 53225394--53225523 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 61
53225384 TTCAAAAATA
* * * *
53225394 ATATT-ATTTAAAAAATTAA-TATTAAATTTAATTTAATATTTATCTTATAGATAAATATT
1 ATATTAATTTAATAGATTAAGTATTAAATTTAATCTAATATGTATCTTATAGATAAATATT
* * *
53225453 TTATTAATTTAATAGATTTAGTATTAAATTTAATCTAATATGTATC-T-T-GATAAGTATT
1 ATATTAATTTAATAGATTAAGTATTAAATTTAATCTAATATGTATCTTATAGATAAATATT
53225511 ATATTAATTTAAT
1 ATATTAATTTAAT
53225524 GTTAAAGTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 21 0.34
59 5 0.08
60 12 0.20
61 23 0.38
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (61 bp):
ATATTAATTTAATAGATTAAGTATTAAATTTAATCTAATATGTATCTTATAGATAAATATT
Found at i:53226857 original size:6 final size:6
Alignment explanation
Indices: 53226846--53226871 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
53226836 AAGAATTTTG
53226846 TGTAGA TGTAGA TGTAGA TGTAGA TG
1 TGTAGA TGTAGA TGTAGA TGTAGA TG
53226872 CATGTGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (6 bp):
TGTAGA
Found at i:53232500 original size:152 final size:152
Alignment explanation
Indices: 53232295--53232590 Score: 556
Period size: 152 Copynumber: 1.9 Consensus size: 152
53232285 CCGACATTTG
53232295 TGTAATTATTTACTTCCACGATTTCCTCATTCATCACTCAACATCTTTATTCGATAATACACATA
1 TGTAATTATTTACTTCCACGATTTCCTCATTCATCACTCAACATCTTTATTCGATAATACACATA
* *
53232360 AAATTTTATTTCAAGTATTAAAATAACATTGATTAATTAAATAATTAATAGAAAAGTTAAGTTCA
66 AAATTGTATTTCAAGTATTAAAATAACATCGATTAATTAAATAATTAATAGAAAAGTTAAGTTCA
53232425 AGTCTACGAACTTACCGAAAAT
131 AGTCTACGAACTTACCGAAAAT
* *
53232447 TGTATTTATTTACTTCCACGATTTCCTCATTCATCACTTAACATCTTTATTCGATAATACACATA
1 TGTAATTATTTACTTCCACGATTTCCTCATTCATCACTCAACATCTTTATTCGATAATACACATA
53232512 AAATTGTATTTCAAGTATTAAAATAACATCGATTAATTAAATAATTAATAGAAAAGTTAAGTTCA
66 AAATTGTATTTCAAGTATTAAAATAACATCGATTAATTAAATAATTAATAGAAAAGTTAAGTTCA
53232577 AGTCTACGAACTTA
131 AGTCTACGAACTTA
53232591 TCAAAACTAC
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 140 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (152 bp):
TGTAATTATTTACTTCCACGATTTCCTCATTCATCACTCAACATCTTTATTCGATAATACACATA
AAATTGTATTTCAAGTATTAAAATAACATCGATTAATTAAATAATTAATAGAAAAGTTAAGTTCA
AGTCTACGAACTTACCGAAAAT
Found at i:53235942 original size:17 final size:17
Alignment explanation
Indices: 53235920--53235952 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53235910 GATCCGAAAA
*
53235920 ATTATTATTTTATCGAG
1 ATTATTAGTTTATCGAG
53235937 ATTATTAGTTTATCGA
1 ATTATTAGTTTATCGA
53235953 TAAATGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
ATTATTAGTTTATCGAG
Found at i:53235968 original size:27 final size:26
Alignment explanation
Indices: 53235938--53236001 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
53235928 TTTATCGAGA
*
53235938 TTATTAGTTTATCGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
* *
53235965 TTATTAATTTATTGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
53235991 TTATTAATTTA
1 TTATTAATTTA
53236002 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:53240659 original size:15 final size:15
Alignment explanation
Indices: 53240639--53240671 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
53240629 TTGGTCTTAT
53240639 ATTCACCAATATATA
1 ATTCACCAATATATA
*
53240654 ATTCACCAGTATATA
1 ATTCACCAATATATA
53240669 ATT
1 ATT
53240672 AAATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.36
Consensus pattern (15 bp):
ATTCACCAATATATA
Found at i:53244034 original size:22 final size:22
Alignment explanation
Indices: 53244006--53244047 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
53243996 TGTGTAGGAT
53244006 AGCCACACGGTCCATGCTCTGG
1 AGCCACACGGTCCATGCTCTGG
*
53244028 AGCCACATGGTCCATGCTCT
1 AGCCACACGGTCCATGCTCT
53244048 ATCACACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.36, G:0.24, T:0.21
Consensus pattern (22 bp):
AGCCACACGGTCCATGCTCTGG
Found at i:53246249 original size:21 final size:21
Alignment explanation
Indices: 53246225--53246283 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
53246215 TGTACAGTGC
53246225 CCAAAATAACCTATTAGCATG
1 CCAAAATAACCTATTAGCATG
* * *
53246246 CCAATTATATCCTATCT--TATG
1 CCAA-AATAACCTAT-TAGCATG
53246267 CCAAAATAACCTATTAG
1 CCAAAATAACCTATTAG
53246284 TATTAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.03
20 8 0.28
21 11 0.38
22 8 0.28
23 1 0.03
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (21 bp):
CCAAAATAACCTATTAGCATG
Found at i:53247027 original size:23 final size:22
Alignment explanation
Indices: 53246977--53247027 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
53246967 ATGTTTTGGA
* *
53246977 TTATTTTTTAAATTAATGGATT
1 TTATTTATTAAATTAATGAATT
* *
53246999 ATATTTATTAATATTTATGAATT
1 TTATTTATTAA-ATTAATGAATT
53247022 TTATTT
1 TTATTT
53247028 TCAAAATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (22 bp):
TTATTTATTAAATTAATGAATT
Found at i:53248911 original size:27 final size:28
Alignment explanation
Indices: 53248876--53248929 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
53248866 TTCCTCATAA
*
53248876 TCTAG-AAAATAAATGTTTATGTTATTT
1 TCTAGAAAAAAAAATGTTTATGTTATTT
*
53248903 TCTATAAAAAAAAATGTTTATGTTATT
1 TCTAGAAAAAAAAATGTTTATGTTATT
53248930 ATTATTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (28 bp):
TCTAGAAAAAAAAATGTTTATGTTATTT
Found at i:53254201 original size:17 final size:17
Alignment explanation
Indices: 53254171--53254205 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
53254161 CATGTAACCG
53254171 TTGAACAAACAATGGAT
1 TTGAACAAACAATGGAT
* *
53254188 TTGAATAAATAATGGAT
1 TTGAACAAACAATGGAT
53254205 T
1 T
53254206 CACGTTCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (17 bp):
TTGAACAAACAATGGAT
Found at i:53258437 original size:19 final size:19
Alignment explanation
Indices: 53258413--53258449 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
53258403 AAATTGCATA
53258413 AATAAAAAACCAATGATCC
1 AATAAAAAACCAATGATCC
53258432 AATAAAAAACCAATGATC
1 AATAAAAAACCAATGATC
53258450 AAAGTAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.19, G:0.05, T:0.16
Consensus pattern (19 bp):
AATAAAAAACCAATGATCC
Found at i:53261741 original size:18 final size:18
Alignment explanation
Indices: 53261707--53261741 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53261697 ATAATTTTCC
*
53261707 TTTTATAGAACATATTTT
1 TTTTATAGAACACATTTT
*
53261725 TTTTATAGAACCCATTT
1 TTTTATAGAACACATTT
53261742 AGTCAAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTTATAGAACACATTTT
Found at i:53264776 original size:31 final size:31
Alignment explanation
Indices: 53264741--53264799 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
53264731 GACTTTTCAT
53264741 GAAGGAAGATGTAATGGTTACTATGAGACAC
1 GAAGGAAGATGTAATGGTTACTATGAGACAC
53264772 GAAGGAAGATGTAATGGTTACTATGAGA
1 GAAGGAAGATGTAATGGTTACTATGAGA
53264800 TAAAATAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.31, T:0.24
Consensus pattern (31 bp):
GAAGGAAGATGTAATGGTTACTATGAGACAC
Found at i:53265393 original size:5 final size:5
Alignment explanation
Indices: 53265383--53265407 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
53265373 AATGGAAAAA
53265383 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
53265408 AAATAATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:53268175 original size:22 final size:21
Alignment explanation
Indices: 53268137--53268196 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
53268127 AGTCAATATT
*
53268137 ATTTT-TAATTTTT-TTT-AA
1 ATTTTATATTTTTTATTTAAA
53268155 ATATTTATATTCTTTTATTTAAA
1 AT-TTTATATT-TTTTATTTAAA
53268178 ATTTTATATTTTTATATTT
1 ATTTTATATTTTT-TATTT
53268197 TTTTCATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 3 0.09
21 7 0.20
22 16 0.46
23 4 0.11
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTATATTTTTTATTTAAA
Found at i:53268192 original size:30 final size:31
Alignment explanation
Indices: 53268149--53268206 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
53268139 TTTTAATTTT
53268149 TTTTAAATATTTATATTCTTTT-ATTTAAAA
1 TTTTAAATATTTATATTCTTTTCATTTAAAA
* * *
53268179 TTTTATATTTTTATATTTTTTTCATTTA
1 TTTTAAATATTTATATTCTTTTCATTTA
53268207 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTAAATATTTATATTCTTTTCATTTAAAA
Found at i:53271812 original size:49 final size:49
Alignment explanation
Indices: 53271755--53271866 Score: 215
Period size: 49 Copynumber: 2.3 Consensus size: 49
53271745 TTCTATATGT
*
53271755 AAGTCTCAAGACATTCGAAGGAATAGTTAAAGTTTGTTTCATGAGAGGC
1 AAGTCTCAAGACATTCGAAGAAATAGTTAAAGTTTGTTTCATGAGAGGC
53271804 AAGTCTCAAGACATTCGAAGAAATAGTTAAAGTTTGTTTCATGAGAGGC
1 AAGTCTCAAGACATTCGAAGAAATAGTTAAAGTTTGTTTCATGAGAGGC
53271853 AAGTCTCAAGACAT
1 AAGTCTCAAGACAT
53271867 GGCGTTTAAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (49 bp):
AAGTCTCAAGACATTCGAAGAAATAGTTAAAGTTTGTTTCATGAGAGGC
Found at i:53280528 original size:17 final size:18
Alignment explanation
Indices: 53280488--53280528 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
53280478 CTAAATTGAT
*
53280488 AAATGTGAAAATTGTGTT
1 AAATGTGAAAATTGTGTG
*
53280506 AAATGTGTAAATT-TGTG
1 AAATGTGAAAATTGTGTG
53280523 AAATGT
1 AAATGT
53280529 ATGGGCTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (18 bp):
AAATGTGAAAATTGTGTG
Found at i:53285779 original size:90 final size:91
Alignment explanation
Indices: 53285655--53285885 Score: 315
Period size: 90 Copynumber: 2.6 Consensus size: 91
53285645 AATTAAGCTC
* * * * *
53285655 CTTTTTTTGCACTTAATTGGGTACTTAAACTTTCAAAATACATCAAAAAGGCCTTCAAACTTTTT
1 CTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTT
**
53285720 C-AAAAAAAGCAATTAAGCCCCTCTT
66 CAAAAAAAAGCAATTAAGCCCCTAAT
* * *
53285745 TTTTTTTTGCACTCAATTGGGTACTTGAATTTTCAAAATGCATTAAAAAGACCCTCAAACTTTTT
1 CTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTT
* *
53285810 CAAAAAAAATCAATTAAGCCCTTAAT
66 CAAAAAAAAGCAATTAAGCCCCTAAT
* *
53285836 CTTTTTTT-CACTCAATTAGGTACTTGAACTAT-AAAATGCATCAAAAAGAC
1 CTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGAC
53285886 TCTTTAACCA
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
89 17 0.14
90 79 0.64
91 27 0.22
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (91 bp):
CTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTT
CAAAAAAAAGCAATTAAGCCCCTAAT
Found at i:53286030 original size:13 final size:13
Alignment explanation
Indices: 53286012--53286046 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
53286002 AAAAATCAAT
53286012 AAAAATTATTTTA
1 AAAAATTATTTTA
53286025 AAAAATTATTTTA
1 AAAAATTATTTTA
53286038 AAAAATTAT
1 AAAAATTAT
53286047 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAAATTATTTTA
Found at i:53286051 original size:10 final size:10
Alignment explanation
Indices: 53286036--53286108 Score: 80
Period size: 10 Copynumber: 7.6 Consensus size: 10
53286026 AAAATTATTT
53286036 TAAAAAATTA
1 TAAAAAATTA
53286046 TAAAAAATTA
1 TAAAAAATTA
*
53286056 T-AAAAATTG
1 TAAAAAATTA
53286065 TAAAAAATTA
1 TAAAAAATTA
** *
53286075 TAAAATTTTG
1 TAAAAAATTA
*
53286085 T-AAAATTTA
1 TAAAAAATTA
53286094 T-AAAAATTA
1 TAAAAAATTA
53286103 TAAAAA
1 TAAAAA
53286109 GCATCAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
9 23 0.43
10 30 0.57
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:53286060 original size:9 final size:9
Alignment explanation
Indices: 53286038--53286108 Score: 79
Period size: 9 Copynumber: 7.6 Consensus size: 9
53286028 AATTATTTTA
53286038 AAAAATTAT
1 AAAAATTAT
53286047 AAAAAATTAT
1 -AAAAATTAT
*
53286057 AAAAATTGT
1 AAAAATTAT
53286066 AAAAAATTAT
1 -AAAAATTAT
* *
53286076 AAAATTTTGT
1 AAAA-ATTAT
*
53286086 AAAATTTAT
1 AAAAATTAT
53286095 AAAAATTAT
1 AAAAATTAT
53286104 AAAAA
1 AAAAA
53286109 GCATCAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
9 29 0.55
10 24 0.45
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:53286062 original size:19 final size:19
Alignment explanation
Indices: 53286038--53286108 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
53286028 AATTATTTTA
53286038 AAAAATTATAAAAAATTAT
1 AAAAATTATAAAAAATTAT
*
53286057 AAAAATTGTAAAAAATTAT
1 AAAAATTATAAAAAATTAT
* * *
53286076 -AAAATTTTGTAAAATTTAT
1 AAAAATTAT-AAAAAATTAT
53286095 AAAAATTATAAAAA
1 AAAAATTATAAAAA
53286109 GCATCAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.16
19 30 0.68
20 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAT
Found at i:53286343 original size:9 final size:9
Alignment explanation
Indices: 53286289--53286486 Score: 77
Period size: 9 Copynumber: 21.2 Consensus size: 9
53286279 TTTTAATACG
*
53286289 ATAAATTTT
1 ATAATTTTT
53286298 ATAAATTTTT
1 AT-AATTTTT
53286308 ATGAA-TTTT
1 AT-AATTTTT
*
53286317 ATATTTCTTT
1 ATAATT-TTT
* *
53286327 ACATTTTTT
1 ATAATTTTT
53286336 ATAATTTTCTT
1 ATAA-TTT-TT
* *
53286347 ATGA-CTTT
1 ATAATTTTT
*
53286355 ATAAAATTTT
1 AT-AATTTTT
53286365 ATAATTTTTTT
1 ATAA--TTTTT
* *
53286376 CTATATTTCT
1 ATA-ATTTTT
**
53286386 ATACCTTTT
1 ATAATTTTT
53286395 AT-ATTCTTT
1 ATAATT-TTT
53286404 -T-ATTTTT
1 ATAATTTTT
*
53286411 ATAAAATTTT
1 AT-AATTTTT
*
53286421 ACAATTTTT
1 ATAATTTTT
53286430 ATAATTTTT
1 ATAATTTTT
53286439 -TAAGATTTTT
1 AT-A-ATTTTT
*
53286449 ATAGTTTTT
1 ATAATTTTT
53286458 ATAA-TTTT
1 ATAATTTTT
*
53286466 AAATATTTTT
1 ATA-ATTTTT
*
53286476 ATATTTTTT
1 ATAATTTTT
53286485 AT
1 AT
53286487 TAAAATTTAT
Statistics
Matches: 142, Mismatches: 28, Indels: 38
0.68 0.13 0.18
Matches are distributed among these distances:
7 3 0.02
8 18 0.13
9 57 0.40
10 51 0.36
11 12 0.08
12 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:53286429 original size:19 final size:19
Alignment explanation
Indices: 53286405--53286451 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
53286395 ATATTCTTTT
53286405 ATTTTTATAAAATTTTACA-
1 ATTTTTATAAAATTTTA-AG
**
53286424 ATTTTTATAATTTTTTAAG
1 ATTTTTATAAAATTTTAAG
53286443 ATTTTTATA
1 ATTTTTATA
53286452 GTTTTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTTATAAAATTTTAAG
Found at i:53286438 original size:28 final size:28
Alignment explanation
Indices: 53286405--53286465 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
53286395 ATATTCTTTT
53286405 ATTTTTATAA-AATTTTACAATTTTTATA
1 ATTTTT-TAAGAATTTTACAATTTTTATA
* * *
53286433 ATTTTTTAAGATTTTTATAGTTTTTATA
1 ATTTTTTAAGAATTTTACAATTTTTATA
53286461 ATTTT
1 ATTTT
53286466 AAATATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTTTTTAAGAATTTTACAATTTTTATA
Found at i:53286473 original size:27 final size:28
Alignment explanation
Indices: 53286425--53286486 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
53286415 AATTTTACAA
*
53286425 TTTTTATAATTTTTTAAGATTTTTATAG
1 TTTTTATAATTTTTAAAGATTTTTATAG
* *
53286453 TTTTTATAA-TTTTAAATATTTTTATAT
1 TTTTTATAATTTTTAAAGATTTTTATAG
53286480 TTTTTAT
1 TTTTTAT
53286487 TAAAATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (28 bp):
TTTTTATAATTTTTAAAGATTTTTATAG
Found at i:53287087 original size:11 final size:11
Alignment explanation
Indices: 53287073--53287098 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53287063 TATTTTTTAA
53287073 TTTTAAAATAC
1 TTTTAAAATAC
53287084 TTTTAAAATAC
1 TTTTAAAATAC
53287095 TTTT
1 TTTT
53287099 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:53287109 original size:22 final size:22
Alignment explanation
Indices: 53287084--53287159 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 22
53287074 TTTAAAATAC
53287084 TTTTAAAATACTTTTTTTAATT
1 TTTTAAAATACTTTTTTTAATT
* *
53287106 TTTTAATTTTAAAATTTTTTTTAAATTT
1 TTTTAA----AATACTTTTTTT-AA-TT
53287134 TTTTAAAATACTTTTTTTAATT
1 TTTTAAAATACTTTTTTTAATT
53287156 TTTT
1 TTTT
53287160 TAATTTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 12 0.27
23 2 0.05
24 10 0.23
26 10 0.23
27 2 0.05
28 8 0.18
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTAAAATACTTTTTTTAATT
Found at i:53287110 original size:39 final size:39
Alignment explanation
Indices: 53287056--53287206 Score: 133
Period size: 39 Copynumber: 3.6 Consensus size: 39
53287046 AATTTTTTTA
* *
53287056 TTTTTTTTATTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC
* * *
53287095 TTTTTTTAATTTTTTAATTTTAAAATTTTTTTTAAATTTTTTTAAAA
1 TTTTTTTAATTTTTTAATTTTAAAA-TATTTTTAAA-------ATAC
53287142 TACTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 T--TTTT-TTAA-TTTTTTAATTTTAAAATATTTTTAAAATAC
*
53287185 TTTTTTTAAATTTTT-ATTTTAA
1 TTTTTTTAATTTTTTAATTTTAA
53287207 TTTTTAAAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
38 7 0.08
39 29 0.32
40 12 0.13
41 4 0.04
43 3 0.03
47 3 0.03
49 4 0.04
50 13 0.14
51 16 0.18
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:53287155 original size:23 final size:23
Alignment explanation
Indices: 53287084--53287162 Score: 90
Period size: 23 Copynumber: 3.3 Consensus size: 23
53287074 TTTAAAATAC
53287084 TTTTAAAATACTTTTTTTAATTTTTT
1 TTTTAAAATACTTTTTTTAA---TTT
53287110 AATTTTAAAAT--TTTTTTTAAATTT
1 --TTTTAAAATACTTTTTTT-AATTT
53287134 TTTTAAAATACTTTTTTTAATTT
1 TTTTAAAATACTTTTTTTAATTT
53287157 TTTTAA
1 TTTTAA
53287163 TTTTAAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
22 9 0.19
23 11 0.23
24 10 0.21
26 7 0.15
27 2 0.04
28 9 0.19
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTAAAATACTTTTTTTAATTT
Found at i:53287159 original size:51 final size:52
Alignment explanation
Indices: 53287073--53287211 Score: 187
Period size: 50 Copynumber: 2.7 Consensus size: 52
53287063 TATTTTTTAA
* *
53287073 TTTTAAAATA-CTTTTAAAATACTTTTTTTAA-TTTTTTAATTTTAAAATTT
1 TTTTAAAATATTTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATAT
*
53287123 TTTTTAAAT-TTTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATAT
* *
53287174 TTTTAAAATACTTTTTTTAAAT-TTTTATTTTAATTTTT
1 TTTTAAAATA-TTTTTTAAAATACTTT-TTTTAATTTTT
53287212 AAAATAAATT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
50 28 0.36
51 26 0.33
52 3 0.04
53 21 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (52 bp):
TTTTAAAATATTTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATAT
Found at i:53287199 original size:11 final size:11
Alignment explanation
Indices: 53287112--53287211 Score: 59
Period size: 11 Copynumber: 9.2 Consensus size: 11
53287102 AATTTTTTAA
*
53287112 TTTTAAAATTT
1 TTTTTAAATTT
53287123 TTTTTAAATTT
1 TTTTTAAATTT
*
53287134 TTTTAAAATACTT
1 TTTTTAAAT--TT
53287147 TTTTT-AA-TT
1 TTTTTAAATTT
53287156 TTTTT-AA---
1 TTTTTAAATTT
* *
53287163 TTTTAAAATAT
1 TTTTTAAATTT
*
53287174 TTTTAAAATACTT
1 TTTTTAAAT--TT
53287187 TTTTTAAATTT
1 TTTTTAAATTT
*
53287198 TTATTTTAATTT
1 TT-TTTAAATTT
53287210 TT
1 TT
53287212 AAAATAAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 9 0.12
11 31 0.42
12 12 0.16
13 15 0.21
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTTAAATTT
Found at i:53287208 original size:12 final size:13
Alignment explanation
Indices: 53287098--53287212 Score: 55
Period size: 12 Copynumber: 9.0 Consensus size: 13
53287088 AAAATACTTT
*
53287098 TTTTAATTTTTTAA
1 TTTTAAATTTTT-A
*
53287112 TTTTAAAATTTT-
1 TTTTAAATTTTTA
53287124 TTTTAAA-TTTT-
1 TTTTAAATTTTTA
* *
53287135 TTTAAAATACTTT-
1 TTTTAAAT-TTTTA
*
53287148 TTTTAATTTTTTTAA
1 TTTTAA-ATTTTT-A
* *
53287163 TTTTAAAATATT-
1 TTTTAAATTTTTA
* *
53287175 TTTAAAATACTTT-
1 TTTTAAAT-TTTTA
53287188 TTTTAAATTTTTA
1 TTTTAAATTTTTA
53287201 TTTT-AATTTTTA
1 TTTTAAATTTTTA
53287213 AAATAAATTT
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
11 10 0.13
12 24 0.31
13 24 0.31
14 14 0.18
15 6 0.08
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTAAATTTTTA
Found at i:53290185 original size:21 final size:20
Alignment explanation
Indices: 53290159--53290207 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
53290149 AGAAAATCTA
*
53290159 AAAATTCAT-AATTTATTTTCT
1 AAAATT-ATAAATTAATTTT-T
53290180 AAAATTATAAAATTAATTTTT
1 AAAATTAT-AAATTAATTTTT
53290201 AAAATTA
1 AAAATTA
53290208 AGCAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 14 0.56
22 9 0.36
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATTATAAATTAATTTTT
Found at i:53290428 original size:16 final size:16
Alignment explanation
Indices: 53290407--53290437 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53290397 TCATAATTGT
*
53290407 GATTAAATTATAAAGG
1 GATTAAATTAAAAAGG
53290423 GATTAAATTAAAAAG
1 GATTAAATTAAAAAG
53290438 ATAACAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (16 bp):
GATTAAATTAAAAAGG
Found at i:53306886 original size:41 final size:41
Alignment explanation
Indices: 53306841--53306942 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
53306831 GCTTAGCGCT
*
53306841 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
53306882 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
53306923 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
53306943 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:53316142 original size:21 final size:20
Alignment explanation
Indices: 53316118--53316177 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
53316108 ACCAAAAATT
53316118 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
*
53316138 GTATTTTAAAATATCT-TAAAAA
1 -TATTTTAAAA-AT-TAAAAAAA
53316160 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
53316178 TAAAAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 1 0.03
19 6 0.18
20 3 0.09
21 16 0.47
22 7 0.21
23 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAA
Found at i:53316197 original size:11 final size:11
Alignment explanation
Indices: 53316183--53316208 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53316173 AAAAATAAAA
53316183 AAAAGTATTTT
1 AAAAGTATTTT
53316194 AAAAGTATTTT
1 AAAAGTATTTT
53316205 AAAA
1 AAAA
53316209 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:53316209 original size:49 final size:48
Alignment explanation
Indices: 53316124--53316226 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 48
53316114 AATTTATTTT
* **
53316124 AAAAATTAAAAAAAGTATTTTAAAATATCTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAAAGTATTTTAAAATATCTTAAAAAT-TTAAAAAATTA
* *
53316173 AAAAATAAAAAAAAGTATTTTAAAAGTAT-TTTAAAATTTAAAAAATTT
1 AAAAATAAAAAAAAGTATTTTAAAA-TATCTTAAAAATTTAAAAAATTA
53316221 AAAAAT
1 AAAAAT
53316227 TAAATATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 14 0.29
49 31 0.65
50 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (48 bp):
AAAAATAAAAAAAAGTATTTTAAAATATCTTAAAAATTTAAAAAATTA
Found at i:53316225 original size:39 final size:37
Alignment explanation
Indices: 53316140--53316226 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 37
53316130 TAAAAAAAGT
*
53316140 ATTTTAAAATATCTTAAAAATATTTTAAAATTAAAAA
1 ATTTAAAAATATCTTAAAAATATTTTAAAATTAAAAA
** * *
53316177 ATAAAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAA
1 AT-TTAAAAA-TATCTTAAAAATATTTTAAAA-TTAAAAA
53316217 ATTTAAAAAT
1 ATTTAAAAAT
53316227 TAAATATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
37 2 0.05
38 5 0.12
39 24 0.60
40 9 0.22
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (37 bp):
ATTTAAAAATATCTTAAAAATATTTTAAAATTAAAAA
Found at i:53323872 original size:2 final size:2
Alignment explanation
Indices: 53323859--53323905 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
53323849 CTATACTATT
*
53323859 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
53323901 TC TC T
1 TC TC T
53323906 ATTTATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:53326401 original size:34 final size:33
Alignment explanation
Indices: 53326316--53326426 Score: 123
Period size: 34 Copynumber: 3.3 Consensus size: 33
53326306 TTTGGTAGGT
* *
53326316 TTAGGGTTTAGGGTTTTTTAAAAATTAATTAAA
1 TTAGGGTTTAGGGATTTTAAAAAATTAATTAAA
* * *
53326349 TTAAGTTTTTGGGATTTTAAATAAATTAATTAAA
1 TTAGGGTTTAGGGATTTTAAA-AAATTAATTAAA
* * *
53326383 TTAGGGATTAGGGGTTTTAAGAGAATTAATTAAA
1 TTAGGGTTTAGGGATTTTAA-AAAATTAATTAAA
*
53326417 TTATGGTTTA
1 TTAGGGTTTA
53326427 AGTTTTTTAT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
33 16 0.25
34 46 0.73
35 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (33 bp):
TTAGGGTTTAGGGATTTTAAAAAATTAATTAAA
Found at i:53326668 original size:15 final size:15
Alignment explanation
Indices: 53326648--53326679 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53326638 TAGTTCCTGA
53326648 AAAAATAATTATGAG
1 AAAAATAATTATGAG
*
53326663 AAAAATAATTTTGAG
1 AAAAATAATTATGAG
53326678 AA
1 AA
53326680 GACAGTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.28
Consensus pattern (15 bp):
AAAAATAATTATGAG
Found at i:53329847 original size:9 final size:9
Alignment explanation
Indices: 53329824--53329853 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
53329814 ATTTCTATTT
53329824 TATTAAAAA
1 TATTAAAAA
53329833 TA-TAAAAA
1 TATTAAAAA
53329841 TATTAAAAA
1 TATTAAAAA
53329850 TATT
1 TATT
53329854 GCCTTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:53329907 original size:25 final size:25
Alignment explanation
Indices: 53329879--53329926 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
53329869 ACTTCTATTT
*
53329879 TATTAGAAATA-TAAAAATAAATTAC
1 TATTA-AAATATTAAAAACAAATTAC
53329904 TATTAAAATATTAAAAACAAATT
1 TATTAAAATATTAAAAACAAATT
53329927 TATTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (25 bp):
TATTAAAATATTAAAAACAAATTAC
Found at i:53329980 original size:91 final size:92
Alignment explanation
Indices: 53329879--53330070 Score: 359
Period size: 92 Copynumber: 2.1 Consensus size: 92
53329869 ACTTCTATTT
*
53329879 TATTAGAAATATAAAAATAAATTACTATTAAAATATTAAAAACAAA-TTTATTTTATTAAATGAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAAATTTTATTTTATTAAATGAA
*
53329943 ATAATATAAAAACAGTTTGTACAAATA
66 ACAATATAAAAACAGTTTGTACAAATA
53329970 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAAATTTTATTTTATTAAATGAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAAATTTTATTTTATTAAATGAA
53330035 ACAATATAAAAACAGTTTGTACAAATA
66 ACAATATAAAAACAGTTTGTACAAATA
53330062 TATTAAAAA
1 TATTAAAAA
53330071 AATTAATGTT
Statistics
Matches: 98, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 45 0.46
92 53 0.54
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.35
Consensus pattern (92 bp):
TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAAATTTTATTTTATTAAATGAA
ACAATATAAAAACAGTTTGTACAAATA
Found at i:53330022 original size:24 final size:25
Alignment explanation
Indices: 53329963--53330017 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
53329953 AACAGTTTGT
53329963 ACAAA-TA-TATTAAAAATATAAAA
1 ACAAATTACTATTAAAAATATAAAA
*
53329986 ATAAATTACTATT-AAAATATTAAAA
1 ACAAATTACTATTAAAAATA-TAAAA
53330011 ACAAATT
1 ACAAATT
53330018 TTATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 8 0.30
25 15 0.56
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (25 bp):
ACAAATTACTATTAAAAATATAAAA
Found at i:53330458 original size:18 final size:18
Alignment explanation
Indices: 53330432--53330474 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
53330422 GACTGGAAAA
* * *
53330432 AGGAAACATATAATGGTT
1 AGGATACATATAAGGGCT
53330450 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
53330468 AGGATAC
1 AGGATAC
53330475 GCACCTGGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:53331001 original size:104 final size:104
Alignment explanation
Indices: 53330872--53331090 Score: 438
Period size: 104 Copynumber: 2.1 Consensus size: 104
53330862 AAATCGAAAA
53330872 AATTCGGTTAACCGACTGAATTAACCGATAAAATTTTGGTTCGGTTAATTGTTTTGAAAAAAATT
1 AATTCGGTTAACCGACTGAATTAACCGATAAAATTTTGGTTCGGTTAATTGTTTTGAAAAAAATT
53330937 TCGGTTCGGTTAACGGTTAAAGATTTTAAAAGGTCGGTT
66 TCGGTTCGGTTAACGGTTAAAGATTTTAAAAGGTCGGTT
53330976 AATTCGGTTAACCGACTGAATTAACCGATAAAATTTTGGTTCGGTTAATTGTTTTGAAAAAAATT
1 AATTCGGTTAACCGACTGAATTAACCGATAAAATTTTGGTTCGGTTAATTGTTTTGAAAAAAATT
53331041 TCGGTTCGGTTAACGGTTAAAGATTTTAAAAGGTCGGTT
66 TCGGTTCGGTTAACGGTTAAAGATTTTAAAAGGTCGGTT
53331080 AATTCGGTTAA
1 AATTCGGTTAA
53331091 TGTTATTTCG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 115 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (104 bp):
AATTCGGTTAACCGACTGAATTAACCGATAAAATTTTGGTTCGGTTAATTGTTTTGAAAAAAATT
TCGGTTCGGTTAACGGTTAAAGATTTTAAAAGGTCGGTT
Found at i:53331118 original size:12 final size:12
Alignment explanation
Indices: 53331101--53331125 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53331091 TGTTATTTCG
53331101 GGTCGGTTAACC
1 GGTCGGTTAACC
53331113 GGTCGGTTAACC
1 GGTCGGTTAACC
53331125 G
1 G
53331126 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:53335095 original size:33 final size:33
Alignment explanation
Indices: 53335053--53335120 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
53335043 ACACCCATAA
53335053 TTGGGGCCTCATTGGAATTTACTGTCTTGATCT
1 TTGGGGCCTCATTGGAATTTACTGTCTTGATCT
*
53335086 TTGGGGCCTCCTTGGAATTTACTGTCTTGATCT
1 TTGGGGCCTCATTGGAATTTACTGTCTTGATCT
53335119 TT
1 TT
53335121 TTCTTCGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (33 bp):
TTGGGGCCTCATTGGAATTTACTGTCTTGATCT
Found at i:53338749 original size:21 final size:21
Alignment explanation
Indices: 53338723--53338767 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
53338713 TTAACATTCA
53338723 TTTTTAA-TTTAATCATCTAAT
1 TTTTTAATTTTAATCA-CTAAT
*
53338744 TTTTTAATTTTAATCACTCAT
1 TTTTTAATTTTAATCACTAAT
53338765 TTT
1 TTT
53338768 ATTTAGGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTAATTTTAATCACTAAT
Found at i:53339273 original size:35 final size:33
Alignment explanation
Indices: 53339233--53339297 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
53339223 GTATAATAAC
*
53339233 ATTAAATTAATGATGAGTGACTAAAATAAAAACTT
1 ATTAAAGTAATGA-G-GTGACTAAAATAAAAACTT
* *
53339268 ATTAAAGTAATTAGGTGACTAAAATGAAAA
1 ATTAAAGTAATGAGGTGACTAAAATAAAAA
53339298 TGGTTGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 15 0.56
34 1 0.04
35 11 0.41
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (33 bp):
ATTAAAGTAATGAGGTGACTAAAATAAAAACTT
Found at i:53339378 original size:86 final size:86
Alignment explanation
Indices: 53339257--53339428 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 86
53339247 GAGTGACTAA
53339257 AATAAAAACTTATTAAAGTAATTAGGTGACTAAAATGAAAATGGTTGTCAATGGCAATGCTCAAT
1 AATAAAAACTTATTAAAGTAATTAGGTGACTAAAATGAAAATGGTTGTCAATGGCAATGCTCAAT
53339322 TTGCATTTTTTTAAAATTTTT
66 TTGCATTTTTTTAAAATTTTT
* *
53339343 AATAAAAACTTATTAAAGTAATTAGGTGACTAAAATGAAAGTGGTTGTTAATGGCAATGCTCAAT
1 AATAAAAACTTATTAAAGTAATTAGGTGACTAAAATGAAAATGGTTGTCAATGGCAATGCTCAAT
53339408 TTGCATTTTTTTAAAATTTTT
66 TTGCATTTTTTTAAAATTTTT
53339429 GATGCCCAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (86 bp):
AATAAAAACTTATTAAAGTAATTAGGTGACTAAAATGAAAATGGTTGTCAATGGCAATGCTCAAT
TTGCATTTTTTTAAAATTTTT
Found at i:53340587 original size:8 final size:8
Alignment explanation
Indices: 53340574--53340618 Score: 74
Period size: 8 Copynumber: 5.6 Consensus size: 8
53340564 TTTCAAAGCA
53340574 AAAAAAAG
1 AAAAAAAG
53340582 AAAAAAAAG
1 -AAAAAAAG
53340591 AAAAAAAG
1 AAAAAAAG
53340599 AAAAAAAG
1 AAAAAAAG
53340607 -AAAAAAG
1 AAAAAAAG
53340614 AAAAA
1 AAAAA
53340619 GACACTTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.20
8 20 0.57
9 8 0.23
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:53340587 original size:9 final size:9
Alignment explanation
Indices: 53340568--53340612 Score: 67
Period size: 8 Copynumber: 5.1 Consensus size: 9
53340558 AAAAATTTTC
53340568 AAAGCAAAAA
1 AAAG-AAAAA
53340578 AAAGAAAAA
1 AAAGAAAAA
53340587 AAAG-AAAA
1 AAAGAAAAA
53340595 AAAG-AAAA
1 AAAGAAAAA
53340603 AAAGAAAAA
1 AAAGAAAAA
53340612 A
1 A
53340613 GAAAAAGACA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.47
9 14 0.41
10 4 0.12
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:53344321 original size:25 final size:25
Alignment explanation
Indices: 53344293--53344349 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
53344283 CATAAACAGA
53344293 AAGCTCATGTGA-A-CCATGTAACGGG
1 AAGCTCATG-GATATCCAT-TAACGGG
*
53344318 AAGCTC-CGGATATCCATTAACGGG
1 AAGCTCATGGATATCCATTAACGGG
53344342 AAGCTCAT
1 AAGCTCAT
53344350 ACGAGCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 15 0.56
25 10 0.37
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
AAGCTCATGGATATCCATTAACGGG
Done.