Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 35 of 91
Found at i:12114411 original size:341 final size:338
Alignment explanation
Indices: 12113853--12118364 Score: 3494
Period size: 341 Copynumber: 13.2 Consensus size: 338
12113843 ATTTATGTTC
* * * * * ** *
12113853 TGTTTTAACCAAGGAAT-AAAGAAAATTTAACTTAAAATCATTTATAAAACCATAAAACCATTTT
1 TGTTTTAACCAA-AAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTA
* * * *
12113917 AAGTGAGTAATAAGGCTTTTCGTAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAAT-AAGT
65 AAGCGAGTAACAAGGC-TTTCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATGGA-T
* ** * * * *
12113981 AGCTTTCGCTTTACA-TTTCTTGATGTAAACATCAAATTATGATATGTTTTCACC-AAAATGGGA
128 GGCTTTCGC-TT-CATTTTC-CAATGCAAACAACAAATTATGATCTGTTTTAACCAAAAAT--GA
* * * * * * * *
12114044 AAAAGTTTAATTTAAAATTATTTATAAACTTAAAAAATCACCTT-ATGCGAGTAACAAGGCTTTT
188 AAAAATTCAATTTAAAATCATTTATAAAGTTATAAAACCA-CTTAAAGCGAGTAACAAGGCTTTC
* * * * *
12114108 GAAGGCATAAGTGACTATAAATGTACTTTTCTTTTCAATGGATAGCTTTCGCTTTACATTTCCCA
252 GAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCA
* *
12114173 ATGCAAACATCGAACTATGATA
317 ATGCAAACATCAAATTATGATA
* * * * * * * *
12114195 TGTTTTAACCAAAAATGAAAAAAAATTCAACTTAAAATTAGTAATAAGACTATGAAACAATTTTA
1 TGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAA
* * * * * ** * * *
12114260 AGCAAGTAACATGGCTTTCAAAGGCATTAGTAACTATGGATGAAATTTTCTTGTCAATAGATAGC
66 AGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATGGATGGC
* * *
12114325 TTTCGCTTCATTTTACCAATGTAAACAACAAATTATGATCTCTTTGAACCAAAAATGAAAAAAGG
131 TTTCGCTTCATTTT-CCAATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATGAAAAAA--
* * * *
12114390 TTTAATTAAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGTGTAATAAGGCTTTCGAAGGC
193 TTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGC
* * * *
12114455 ATGAG-CAATATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCTCGATGCAA
258 ATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAATGCAA
*
12114519 ATAAT-AAATTATGATA
323 A-CATCAAATTATGATA
* * * *
12114535 TGTTTCAACCAAAAATGAAAAACAATTCAA-TTAAAATCA-TTACAATATTATAAAACCATTTAA
1 TGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAA
* * * * * ** *
12114598 AGCAAGTAACAGGGATTTCAAAGGCATG-GTTGATTATGGATGGACTTTTCTTGTCAATGGATGG
66 AGCGAGTAACAAGGCTTTCGAAGGCATGAG-TGACTATAAATGAACTTTTCTTGTCAATGGATGG
* * * * * ** *
12114662 CTTTCACTACACGTTTCCTAATGC-ACCAACAAATTCTGATCCCTTTTAACCAACAATGAAAGAA
130 CTTTCGCTTCA-TTTTCC-AATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATG-AA-AA
* * * * * * * *
12114726 AATTCAACTTAAAATCATTTATAACA-CTATAAAACTATTTAAAAGCAAATAACTAGGATTTCAA
191 AATTCAATTTAAAATCATTTATAA-AGTTATAAAACCACTT-AAAGCGAGTAACAAGGCTTTC--
* * * *
12114790 AGGCTAGGCTTTCCAATGTATAAATGACTATAAATGGACTTTTCTTGT-AAT-TATGTGCCTCTC
252 --G-AAGG-----C-ATG----AGTGACTATAAATGGACTTTTCTTGTCAATGGATG-G-CTTTC
* * * *
12114853 GCTTCACGTTTCTCAATGCAGACATCAAATTATGATT
302 GCTTCACATTTCCCAATGCAAACATCAAATTATGATA
** * * * * ***
12114890 TAATTTAACCAAAACT-AAAATAAAATTGAATTTAAAGTTATTTATAA-AGTTATAAAACTGCTT
1 TGTTTTAACCAAAAATGAAAA-AAAATTCAATTTAAAATCATTTATAAGA-TTATAAAACCATTT
* * *
12114953 AAAGCGAGTAATAAGGCTTAT-GAAGACATGAGTGACTATAAGTGAACTTTTCTTGTCAATGGAT
64 AAAGCGAGTAACAAGGCTT-TCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATGGAT
* * * * * *
12115017 -GATATTCGCTTCACGTTTGCTAATGCAAACAATATATTATGATCTGTTTTAACCAAAAGTGAAA
128 GGCT-TTCGCTTCA--TTTTCCAATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATGAAA
* * * * *
12115081 AACATTAAATTTAAAATCATTTATAAAGATATAAAATCACTTAAAGTGAGTAACAAGGCTTTCAA
190 AA-ATTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGA
* * * * * * * **
12115146 AGGCATTAGTGACTACAAACGGACTTTTTTTGTCAATGGATGAG-TCTAGCTTCACGTTTCCTGA
254 AGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATG-GCTTTCGCTTCACATTTCCCAA
* *
12115210 TGC-AACATCAAATTATAATC
318 TGCAAACATCAAATTATGATA
* * **
12115230 TGTTTTAACC-AAAAGGAAAAAAAATTCAATTTCAAATCATTTATAACG-TTATAAAACCACATA
1 TGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAA-GATTATAAAACCATTTA
* * * * * * *
12115293 AAGCTAGCAACAAAGCTTTTG-AGGCGTTAGTGACTATAAAT-AGACTTTTCATGTCAATGGATG
65 AAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGA-ACTTTTCTTGTCAATGGATG
* * * * **
12115356 GCTTTTGCTTTACGTTTCCTAATGCAAACATCAAATTATCTTCTGTTTTAACCAAAAATGAGAAA
129 GCTTTCGCTTCA-TTTTCC-AATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATGA-AAA
* * * * * *
12115421 AATTCAATTTAAAAATCATTTA-GAAGATTATAAAATCATTTAAAGCAAGCAACAAGGCTTTCAA
191 AATTCAATTT-AAAATCATTTATAAAG-TTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGA
* **
12115485 AGGCATCAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCATGTTTCCCAAT
254 AGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAAT
* * *
12115550 GCCAACAACAAATTAT-ATTT
319 GCAAACATCAAATTATGA-TA
* * *
12115570 TGTTCTAACC-AAAATTAAAAAAAATTCAATTTCAAAATTATTTATAAGATTATAAAACCATTTA
1 TGTTTTAACCAAAAATGAAAAAAAATTCAATTT-AAAATCATTTATAAGATTATAAAACCATTTA
* * *
12115634 AAG-GAGTAACAAAGCTTTTGAAGGCATGAGTGACTATAAATGGATA-TTTT-TTGTCGATGGAT
65 AAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAAT-GA-ACTTTTCTTGTCAATGGAT
* * * ** *
12115696 GGCTTTTGCATCACGTTTCCTAATGCAAACATTAAATTATGATGTGTTTTAA-CAAAAAGTGGAT
128 GGCTTTCGCTTCA-TTTTCC-AATGCAAACAACAAATTATGATCTGTTTTAACCAAAAA-T-GA-
* * * * * ** * * * *
12115760 AGAAATTCAATGTAAAATCATTTATAAAGTTTTACAACCACATAAAGCTTGTAATAAGACTTCCA
188 AAAAATTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCG
* * * *
12115825 AAGGCATGAGTGACTATAAATGGACTTTTGTTGTCAATGGATGGCTTTTGCTTTACATTTCCAAA
253 AAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAA
* *
12115890 TGCAAACTTCAAATTATGATC
318 TGCAAACATCAAATTATGATA
* * * * *
12115911 T-TTATAA-CAGAAA-GAGAGAAAAATTCAAATTTAAAATCATTTGTAAGATTATAAAATCATTT
1 TGTTTTAACCAAAAATGA-AAAAAAATTC-AATTTAAAATCATTTATAAGATTATAAAACCATTT
* * * * * * *
12115973 AAAGTC-AGTAACAATGCTTTCTTAAGGCATGAGTCATTAAAAAT-AGACTTTTCTTATCAATTG
64 AAAG-CGAGTAACAAGGCTTTC-GAAGGCATGAGTGACTATAAATGA-ACTTTTCTTGTCAATGG
* * * *
12116036 ATGGCTTTCGTTTCATGTTTTCCAATGCAAATAAGAAATTATG-TTTGGTTTTAACCAAAAATGA
126 ATGGCTTTCGCTTCA--TTTTCCAATGCAAACAACAAATTATGATCT-GTTTTAACCAAAAATGA
* * * *
12116100 AAAATATTCAATTTAAAATTATTTA-GAAGATTAT-AAACCATTTAAAG-GAGT-ACAAAGCTTT
188 AAAA-ATTCAATTTAAAATCATTTATAAAG-TTATAAAACCACTTAAAGCGAGTAACAAGGCTTT
* * * * * * * * *
12116161 CAAAGGCATAAGTGACTATAAATGGATTTTTATTGCCAATAGATGGCTTTCGCTTCTCGTTTCTC
251 CGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCC
* * ** * *
12116226 GATGCAAATAGGAAATTGTGATC
316 AATGCAAACATCAAATTATGATA
* * * * * * *
12116249 TATTTTATCCAAAATTTAAAAACAAATTCAATTGAAAATCATTTCT-AGAATTATAAAACTATTT
1 TGTTTTAACCAAAAATGAAAAA-AAATTCAATTTAAAATCATTTATAAG-ATTATAAAACCATTT
* * * * * * * * * * *
12116313 AAAGCGAGTAATAAAGCTTTTGAATGCATAAGTGACTATAAATGGACTTTTTTTATGAATGAATT
64 AAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATGGATG
* * * * *
12116378 G-TTGTCACTTCATGTTTCCCAATTCAAACAACAAATTATGATATGTTTAAATCAAAAATGAAAG
129 GCTT-TCGCTTCAT-TTT-CCAATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATG-AA-
* * *** * *
12116442 AAAATTCAACTTCAAATCATTTATAAAACCATAAAACCATTTAAAGTGAGTAACAAGGCTTTCGA
189 AAAATTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGA
* * * * **
12116507 TGGCATGAGTGATTATAAATGGACTTTTCTTGTAAATGGATGGCTTTTGCTTCATGTTTCCCAAT
254 AGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAAT
* * *
12116572 GCACACAACAAATTATGATCC
319 GCAAACATCAAATTATGAT-A
* * * * * * *
12116593 T-TTTTAACCAAAAATGAAAGAAAATTCAACTAAAAATAATTTATAACACTATAAAACTATTTAA
1 TGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAA
* * ** * * * * *
12116657 AGCAAATAACTGGGTTTTTGAAGGCATGAGTGACTATAATTGGACTTTTCTTGT-AATTGGGTGG
66 AGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAA-TGGATGG
* * * * * *
12116721 CTTTCGCTTCATGTTTCCGAATGTAGACATCAAATTATGATCTATTTTATCCAAAAGTGAACAAA
130 CTTTCGCTTCAT-TTTCC-AATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATGAA-AAA
* ** * *
12116786 ATTCAATTCAAAATTGTTTATAAAGTTATAAAACCACTTAAAGAGAGTAACAAGGCTTTCGAATG
192 ATTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGG
* * * * ** *
12116851 CATGAGTGACTATAAAAGGA-TGTTTCTTTTTAATGGATGGCGTTCGCTTCACATTTCCTGATAC
257 CATGAGTGACTATAAATGGACT-TTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAATGC
* *
12116915 AAACAAT-AAATCATGATT
321 AAAC-ATCAAATTATGATA
* * * * * * *
12116933 TGTTTTAACCAAAATTGAAAAGAAAAATCAATCTAAAGTCCTTTATATAG-TTATAAAAACACTT
1 TGTTTTAACCAAAAATGAAAA-AAAATTCAATTTAAAATCATTTATA-AGATTATAAAACCATTT
* * ** * *
12116997 AAAGTGAGCATTAAGGCTTTCGAAGGCATTG-GTGACTATAAATGGACTTTCCTTGTCAATGGAT
64 AAAGCGAGTAACAAGGCTTTCGAAGGCA-TGAGTGACTATAAATGAACTTTTCTTGTCAATGGAT
* * * * ** *
12117061 GGCTTTTGCTTCATGTTTCCCAATGCAAACATCAAATTATAATATGTTTTAACCATAAGTTAAAA
128 GGCTTTCGCTTCAT-TTT-CCAATGCAAACAACAAATTATGATCTGTTTTAACCA-AAAATGAAA
* * * *
12117126 AAATTCAATTTAAAATCATTTATAATGTTATAAAACCACATAAAGCTAGTAACAAGGCTTTTGAA
190 AAATTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAA
* * * * * *
12117191 GGCATGAATGACTATAAATGAACTTTTCTTGTCAATAGATGGCTTTTGCTTCATATTTCCTAATG
255 GGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAATG
*
12117256 CAGACATCAAATTATGATA
320 CAAACATCAAATTATGATA
** * *
12117275 TGTTTTAATGAAAAATG-AGAAAAATTCAAATTTAAAATCATTTATAAGATTATAAAATCATTTA
1 TGTTTTAACCAAAAATGAAAAAAAATTC-AATTTAAAATCATTTATAAGATTATAAAACCATTTA
* * * * * *
12117339 AAGCTAGTAACAATGCTTTCGAAGGCGTGAGTAACTATAATTGGACTTTTCTTGTCAATGGATGG
65 AAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATGGATGG
* * * ** * *
12117404 CTTTCGCTTCATGTTTCCCAATGTAAACAATAAATTATGTTCAATTTTATCCAAAATTGAAAAAA
130 CTTTCGCTTCAT-TTT-CCAATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATG--AAAA
* * * * *
12117469 AATTCAATTTAACATTATTTGT-AAGATTATAAAACCA-TGTAAAG-GAGTAACAAAGTTTTCGA
191 AATTCAATTTAAAATCATTTATAAAG-TTATAAAACCACT-TAAAGCGAGTAACAAGGCTTTCGA
* * * *
12117531 AGGTATGAGTGACTATAAATGGACTTTTCCTGTCAATTGATGGCTTTCGATTCACATTTCCCAAT
254 AGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAAT
** *
12117596 GCAAATTTTAAATTATGATA
319 GCAAACATCAAATTATGATA
** * * * * * **
12117616 TGTTTTAATTAGAAGTGAAAACAAATTCAATCTAAAATCACTTATCAAG-TTATAAAACCACATA
1 TGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTAT-AAGATTATAAAACCATTTA
* * * * * * *
12117680 AAGCTAGTAACAAGGCTTTCAAAGGCATAAGTCAATATAAATGGACCTTTCTTGTCAATGGATGG
65 AAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATGGATGG
* * ** * * * * *
12117745 CTTTCACTTCAAGTTTCTTGATACCAACAACAAATTATGGTCTGTTTTAACGAAAATTGAAAAAA
130 CTTTCGCTTC-ATTTTC-CAATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATG--AAAA
* * * * * * * *
12117810 AACTCAATTTAAAATTATTTAT-AAGATTATAAAACCATTTAAA-TGTGTAACAAAGCTATCAAA
191 AATTCAATTTAAAATCATTTATAAAG-TTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAA
* * * ** * **
12117873 GGTATGAGTGACTATAAATGGACTTTTCCTGTCAATGGATGGCTTTTGCTTCATGTTACTTAATG
255 GGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAATG
*
12117938 TAAACATCAAATTATGATA
320 CAAACATCAAATTATGATA
* * * * * * **
12117957 TGCTTTAACTAGAAGTGAAAAACAAATTCAATTTATAATCATTTATAA-AGTTATAAAATCACAT
1 TGTTTTAACCAAAAATGAAAAA-AAATTCAATTTAAAATCATTTATAAGA-TTATAAAACCATTT
* * * *
12118021 AAAGCTAGTAACAAGGCTTTTGAAGGCGTGAGTGACTATAAATTG-ACTTTTCTTGTCAATGTAT
64 AAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAA-TGAACTTTTCTTGTCAATGGAT
* * *** * * * * **
12118085 GTCTTTTGCTTCACATTTTTTGATGGAAACATCAATTTATGTTCTAATTTAACCAAAAAATGAGA
128 GGCTTTCGCTT--CATTTTCCAATGCAAACAACAAATTATGATCTGTTTTAACC-AAAAATGA-A
* * * * * * * *
12118150 AAAATTCAATTTTAAAATCATCTAT-AAGATTATATAATCATTTAATGAGAGTAACAATGCTTTT
189 AAAATTCAA-TTTAAAATCATTTATAAAG-TTATAAAACCACTTAAAGCGAGTAACAAGGCTTTC
* * * ** **
12118214 GAAGGCATGAGTAACTATAAATGGATTTTTCTTGTCAATAGATGGCTTTCGCTTCATGTTTCCTG
252 GAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCA
** * * *
12118279 ATGCAAACAAGAAACTATGTTT
317 ATGCAAACATCAAATTATGATA
* * * ** * *
12118301 TGTTTGAACCAAAAAT-AAAAAAAATTCAACTTATAATTTTTTGTAAGATTAT-AAACTATTTAA
1 TGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAA
12118364 A
66 A
12118365 AGAGAAGTCC
Statistics
Matches: 3351, Mismatches: 679, Indels: 281
0.78 0.16 0.07
Matches are distributed among these distances:
337 6 0.00
338 312 0.09
339 281 0.08
340 375 0.11
341 1097 0.33
342 736 0.22
343 176 0.05
344 100 0.03
345 2 0.00
346 1 0.00
349 1 0.00
350 3 0.00
351 3 0.00
353 3 0.00
354 11 0.00
355 73 0.02
356 30 0.01
357 110 0.03
358 31 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (338 bp):
TGTTTTAACCAAAAATGAAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAACCATTTAA
AGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATGGATGGC
TTTCGCTTCATTTTCCAATGCAAACAACAAATTATGATCTGTTTTAACCAAAAATGAAAAAATTC
AATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATG
AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATTTCCCAATGCAAACA
TCAAATTATGATA
Found at i:12115521 original size:171 final size:170
Alignment explanation
Indices: 12113845--12118364 Score: 3686
Period size: 171 Copynumber: 26.4 Consensus size: 170
12113835 AAAAAAGAAT
* * * * * **
12113845 TTATGTTCTGTTTTAACCAAGGAAT-AAAGAAAATTTAACTTAAAATCATTTATAAAACCATAAA
1 TTATGATCTGTTTTAACCAA-AAATGAAA-AAAATTCAATTTAAAATCATTTATAAGATTATAAA
* * * * *
12113909 ACCATTTTAAGTGAGTAATAAGGCTTTTCGTAGGCATGAGTGACTATAAATGAACTTTTCTTGTC
64 ACCATTTAAAGCGAGTAACAAGGC-TTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * * * * * *
12113974 AAT-AAGTAGCTTTCGCTTTACATTTCTTGATGTAAACATCAAA
128 AATGGA-TGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * * * *
12114017 TTATGATATGTTTTCACC-AAAATGGGAAAAAGTTTAATTTAAAATTATTTATAA-ACTTAAAAA
1 TTATGATCTGTTTTAACCAAAAAT-GAAAAAAATTCAATTTAAAATCATTTATAAGA-TTATAAA
* * * * * * *
12114080 ATCACCTT-ATGCGAGTAACAAGGCTTTTGAAGGCATAAGTGACTATAAATGTACTTTTCTTTTC
64 ACCA-TTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * * * *
12114144 AATGGATAGCTTTCGCTTTACATTTCCCAATGCAAACATCGAA
128 AATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * * * * *
12114187 CTATGATATGTTTTAACCAAAAATGAAAAAAAATTCAACTTAAAATTAGTAATAAGACTATGAAA
1 TTATGATCTGTTTTAACCAAAAATG-AAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAA
* * * * * * * ** * *
12114252 CAATTTTAAGCAAGTAACATGGCTTTCAAAGGCATTAGTAACTATGGATGAAATTTTCTTGTCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * * * *
12114317 TAGATAGCTTTCGCTTCA-TTTTACC-AATGTAAACAACAAA
130 TGGATGGCTTTCGCTTCACGTTT-CCTAATGCAAACATCAAA
* * * * *
12114357 TTATGATCTCTTTGAACCAAAAATGAAAAAAGGTTTAATTAAAAATCATTTATAA-AGTTATAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAAAA-ATTCAATTTAAAATCATTTATAAGA-TTATAAA
* * * * *
12114421 ACCACTTAAAGCGTGTAATAAGGCTTTCGAAGGCATGAG-CAATATAAATGGACTTTTCTTGTCA
64 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCA
* * *
12114485 ATGGATGGCTTTCGCTTCACATTT-CTCGATGCAAATAAT-AAA
129 ATGGATGGCTTTCGCTTCACGTTTCCT-AATGCAAA-CATCAAA
* * * *
12114527 TTATGATATGTTTCAACCAAAAATGAAAAACAATTCAA-TTAAAATCA-TTACAATATTATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAAA-AATTCAATTTAAAATCATTTATAAGATTATAAAA
* * * * * **
12114590 CCATTTAAAGCAAGTAACAGGGATTTCAAAGGCATG-GTTGATTATGGATGGACTTTTCTTGTCA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAG-TGACTATAAATGGACTTTTCTTGTCA
* * * *
12114654 ATGGATGGCTTTCACTACACGTTTCCTAATGC-ACCAACAAA
129 ATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* ** * * * *
12114695 TTCTGATCCCTTTTAACCAACAATGAAAGAAAATTCAACTTAAAATCATTTATAACACTATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAA-AAAATTCAATTTAAAATCATTTATAAGATTATAAAA
* * * * * * *
12114760 CTATTTAAAAGCAAATAACTAGGATTTCAAAGGCTAGGCTTTCCAATGTATAAATGACTATAAAT
65 CCATTT-AAAGCGAGTAACAAGGCTTTC----G-AAGG-----C-ATG----AGTGACTATAAAT
* * *
12114825 GGACTTTTCTTGT-AAT-TATGTGCCTCTCGCTTCACGTTT-CTCAATGCAGACATCAAA
114 GGACTTTTCTTGTCAATGGATG-G-CTTTCGCTTCACGTTTCCT-AATGCAAACATCAAA
* ** * * * * *
12114882 TTATGATTTAATTTAACCAAAACTAAAATAAAATTGAATTTAAAGTTATTTATAA-AGTTATAAA
1 TTATGATCTGTTTTAACCAAAAATGAAA-AAAATTCAATTTAAAATCATTTATAAGA-TTATAAA
*** * * * *
12114946 ACTGCTTAAAGCGAGTAATAAGGCTTAT-GAAGACATGAGTGACTATAAGTGAACTTTTCTTGTC
64 ACCATTTAAAGCGAGTAACAAGGCTT-TCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * *
12115010 AATGGAT-GATATTCGCTTCACGTTTGCTAATGCAAACAAT-ATA
128 AATGGATGGCT-TTCGCTTCACGTTTCCTAATGCAAAC-ATCAAA
* * *
12115053 TTATGATCTGTTTTAACCAAAAGTGAAAAACATTAAATTTAAAATCATTTATAAAGA-TATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAAAAATTCAATTTAAAATCATTTAT-AAGATTATAAAA
* * * * * * * *
12115117 TCACTTAAAGTGAGTAACAAGGCTTTCAAAGGCATTAGTGACTACAAACGGACTTTTTTTGTCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * *
12115182 TGGATGAG-TCTAGCTTCACGTTTCCTGATGC-AACATCAAA
130 TGGATG-GCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * *
12115222 TTATAATCTGTTTTAACC-AAAAGGAAAAAAAATTCAATTTCAAATCATTTATAACG-TTATAAA
1 TTATGATCTGTTTTAACCAAAAATG-AAAAAAATTCAATTTAAAATCATTTATAA-GATTATAAA
** * * * * * * * *
12115285 ACCACATAAAGCTAGCAACAAAGCTTTTG-AGGCGTTAGTGACTATAAATAGACTTTTCATGTCA
64 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCA
* *
12115349 ATGGATGGCTTTTGCTTTACGTTTCCTAATGCAAACATCAAA
129 ATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
** * *
12115391 TTATCTTCTGTTTTAACCAAAAATGAGAAAAATTCAATTTAAAAATCATTTAGAAGATTATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAAAAATTCAATTT-AAAATCATTTATAAGATTATAAAA
* * * * *
12115456 TCATTTAAAGCAAGCAACAAGGCTTTCAAAGGCATCAGTGACTATAAATGGACTTTTCTTGTCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * * *
12115521 TGGATGGCTTTCGCTTCATGTTTCCCAATGCCAACAACAAA
130 TGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * *
12115562 TTAT-ATTTTGTTCTAACCAAAATTAAAAAAAATTCAATTTCAAAATTATTTATAAGATTATAAA
1 TTATGA-TCTGTTTTAACCAAAAATGAAAAAAATTCAATTT-AAAATCATTTATAAGATTATAAA
* * *
12115626 ACCATTTAAAG-GAGTAACAAAGCTTTTGAAGGCATGAGTGACTATAAATGGA-TATTTTTTGTC
64 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACT-TTTCTTGTC
* * * *
12115689 GATGGATGGCTTTTGCATCACGTTTCCTAATGCAAACATTAAA
128 AATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * * *
12115732 TTATGATGTGTTTTAA-CAAAAAGTGGATAGAAATTCAATGTAAAATCATTTATAA-AGTTTTAC
1 TTATGATCTGTTTTAACCAAAAA-T-GAAAAAAATTCAATTTAAAATCATTTATAAGA-TTATAA
** ** * * * * *
12115795 AACCACATAAAGCTTGTAATAAGACTTCCAAAGGCATGAGTGACTATAAATGGACTTTTGTTGTC
63 AACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * * * *
12115860 AATGGATGGCTTTTGCTTTACATTTCCAAATGCAAACTTCAAA
128 AATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * *
12115903 TTATGATCT-TTATAA-CAGAAAGA-GAGAAAAATTCAAATTTAAAATCATTTGTAAGATTATAA
1 TTATGATCTGTTTTAACCA-AAA-ATGAAAAAAATTC-AATTTAAAATCATTTATAAGATTATAA
* * * * * * * *
12115965 AATCATTTAAAGTC-AGTAACAATGCTTTCTTAAGGCATGAGTCATTAAAAATAGACTTTTCTTA
63 AACCATTTAAAG-CGAGTAACAAGGCTTTC-GAAGGCATGAGTGACTATAAATGGACTTTTCTTG
* * * * **
12116029 TCAATTGATGGCTTTCGTTTCATGTTTTCC-AATGCAAATAAGAAA
126 TCAATGGATGGCTTTCGCTTCACG-TTTCCTAATGCAAACATCAAA
* * * *
12116074 TTATG-TTTGGTTTTAACCAAAAATGAAAAATATTCAATTTAAAATTATTTAGAAGATTAT-AAA
1 TTATGATCT-GTTTTAACCAAAAATGAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAA
* * * * * *
12116137 CCATTTAAAG-GAGT-ACAAAGCTTTCAAAGGCATAAGTGACTATAAATGGATTTTTATTGCCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * * * **
12116200 TAGATGGCTTTCGCTTCTCGTTT-CTCGATGCAAATAGGAAA
130 TGGATGGCTTTCGCTTCACGTTTCCT-AATGCAAACATCAAA
* * * * * * *
12116241 TTGTGATCTATTTTATCCAAAATTTAAAAACAAATTCAATTGAAAATCATTTCT-AGAATTATAA
1 TTATGATCTGTTTTAACCAAAA-ATGAAAA-AAATTCAATTTAAAATCATTTATAAG-ATTATAA
* * * * * * * * *
12116305 AACTATTTAAAGCGAGTAATAAAGCTTTTGAATGCATAAGTGACTATAAATGGACTTTTTTTATG
63 AACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * * * * * *
12116370 AATGAATTG-TTGTCACTTCATGTTTCCCAATTCAAACAACAAA
128 AATGGATGGCTT-TCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * * * **
12116413 TTATGATATGTTTAAATCAAAAATGAAAGAAAATTCAACTTCAAATCATTTATAAAACCATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAA-AAAATTCAATTTAAAATCATTTATAAGATTATAAAA
* * * *
12116478 CCATTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGATTATAAATGGACTTTTCTTGTAAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * * * *
12116543 TGGATGGCTTTTGCTTCATGTTTCCCAATGCACACAACAAA
130 TGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * *
12116584 TTATGATCCT-TTTTAACCAAAAATGAAAGAAAATTCAACTAAAAATAATTTATAACACTATAAA
1 TTATGAT-CTGTTTTAACCAAAAATGAAA-AAAATTCAATTTAAAATCATTTATAAGATTATAAA
* * * ** * * *
12116648 ACTATTTAAAGCAAATAACTGGGTTTTTGAAGGCATGAGTGACTATAATTGGACTTTTCTTGT-A
64 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCA
* * * * *
12116712 ATTGGGTGGCTTTCGCTTCATGTTTCCGAATGTAGACATCAAA
129 A-TGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * * **
12116755 TTATGATCTATTTTATCCAAAAGTGAACAAAATTCAATTCAAAATTGTTTATAA-AGTTATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAAAAATTCAATTTAAAATCATTTATAAGA-TTATAAAA
* * * * * *
12116819 CCACTTAAAGAGAGTAACAAGGCTTTCGAATGCATGAGTGACTATAAAAGGA-TGTTTCTTTTTA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACT-TTTCTTGTCA
* * * *
12116883 ATGGATGGCGTTCGCTTCACATTTCCTGATACAAACAAT-AAA
129 ATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAAC-ATCAAA
* * * * * * *
12116925 TCATGATTTGTTTTAACCAAAATTGAAAAGAAAAATCAATCTAAAGTCCTTTATATAG-TTATAA
1 TTATGATCTGTTTTAACCAAAAATG-AAA-AAAATTCAATTTAAAATCATTTATA-AGATTATAA
* * * * ** *
12116989 AAACACTTAAAGTGAGCATTAAGGCTTTCGAAGGCATTG-GTGACTATAAATGGACTTTCCTTGT
63 AACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCA-TGAGTGACTATAAATGGACTTTTCTTGT
* * *
12117053 CAATGGATGGCTTTTGCTTCATGTTTCCCAATGCAAACATCAAA
127 CAATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * *
12117097 TTATAATATGTTTTAACCATAAGTTAAAAAAATTCAATTTAAAATCATTTATAATG-TTATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAAAAATTCAATTTAAAATCATTTATAA-GATTATAAAA
** * * * *
12117161 CCACATAAAGCTAGTAACAAGGCTTTTGAAGGCATGAATGACTATAAATGAACTTTTCTTGTCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * ** *
12117226 TAGATGGCTTTTGCTTCATATTTCCTAATGCAGACATCAAA
130 TGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* ** *
12117267 TTATGATATGTTTTAATGAAAAATGAGAAAAATTCAAATTTAAAATCATTTATAAGATTATAAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAAAAATTC-AATTTAAAATCATTTATAAGATTATAAAA
* * * * * *
12117332 TCATTTAAAGCTAGTAACAATGCTTTCGAAGGCGTGAGTAACTATAATTGGACTTTTCTTGTCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * *
12117397 TGGATGGCTTTCGCTTCATGTTTCCCAATGTAAACAAT-AAA
130 TGGATGGCTTTCGCTTCACGTTTCCTAATGCAAAC-ATCAAA
* ** * * * * *
12117438 TTATGTTCAATTTTATCCAAAATTGAAAAAAAATTCAATTTAACATTATTTGTAAGATTATAAAA
1 TTATGATCTGTTTTAACCAAAAATG-AAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAA
* * * * *
12117503 CCATGTAAAG-GAGTAACAAAGTTTTCGAAGGTATGAGTGACTATAAATGGACTTTTCCTGTCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * * * ** *
12117567 TTGATGGCTTTCGATTCACATTTCCCAATGCAAATTTTAAA
130 TGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* ** * * * *
12117608 TTATGATATGTTTTAATTAGAAGTGAAAACAAATTCAATCTAAAATCACTTATCAAG-TTATAAA
1 TTATGATCTGTTTTAACCAAAAATGAAAA-AAATTCAATTTAAAATCATTTAT-AAGATTATAAA
** * * * * * *
12117672 ACCACATAAAGCTAGTAACAAGGCTTTCAAAGGCATAAGTCAATATAAATGGACCTTTCTTGTCA
64 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCA
* * * * * * *
12117737 ATGGATGGCTTTCACTTCAAGTTTCTTGATACCAACAACAAA
129 ATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * *
12117779 TTATGGTCTGTTTTAACGAAAATTGAAAAAAAACTCAATTTAAAATTATTTATAAGATTATAAAA
1 TTATGATCTGTTTTAACCAAAAATG-AAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAA
* * * * * * *
12117844 CCATTTAAA-TGTGTAACAAAGCTATCAAAGGTATGAGTGACTATAAATGGACTTTTCCTGTCAA
65 CCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA
* * * * *
12117908 TGGATGGCTTTTGCTTCATGTTACTTAATGTAAACATCAAA
130 TGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * * *
12117949 TTATGATATGCTTTAACTAGAAGTGAAAAACAAATTCAATTTATAATCATTTATAA-AGTTATAA
1 TTATGATCTGTTTTAACCAAAAATG-AAAA-AAATTCAATTTAAAATCATTTATAAGA-TTATAA
* ** * * * *
12118013 AATCACATAAAGCTAGTAACAAGGCTTTTGAAGGCGTGAGTGACTATAAATTGACTTTTCTTGTC
63 AACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * * * ** * * *
12118078 AATGTATGTCTTTTGCTTCACATTTTTTGATGGAAACATCAAT
128 AATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* ** * * *
12118121 TTATGTTCTAATTTAACCAAAAAATGAGAAAAATTCAATTTTAAAATCATCTATAAGATTATATA
1 TTATGATCTGTTTTAACC-AAAAATGAAAAAAATTCAA-TTTAAAATCATTTATAAGATTATAAA
* * * * * * *
12118186 ATCATTTAATGAGAGTAACAATGCTTTTGAAGGCATGAGTAACTATAAATGGATTTTTCTTGTCA
64 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCA
* * * **
12118251 ATAGATGGCTTTCGCTTCATGTTTCCTGATGCAAACAAGAAA
129 ATGGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
* * * * * * * ** *
12118293 CTATGTTTTGTTTGAACCAAAAATAAAAAAAATTCAACTTATAATTTTTTGTAAGATTAT-AAAC
1 TTATGATCTGTTTTAACCAAAAATGAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAAC
*
12118357 TATTTAAA
66 CATTTAAA
12118365 AGAGAAGTCC
Statistics
Matches: 3472, Mismatches: 742, Indels: 271
0.77 0.17 0.06
Matches are distributed among these distances:
165 1 0.00
166 3 0.00
167 75 0.02
168 158 0.05
169 284 0.08
170 1106 0.32
171 1202 0.35
172 491 0.14
173 15 0.00
175 3 0.00
176 4 0.00
181 3 0.00
182 4 0.00
184 3 0.00
185 6 0.00
186 54 0.02
187 60 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (170 bp):
TTATGATCTGTTTTAACCAAAAATGAAAAAAATTCAATTTAAAATCATTTATAAGATTATAAAAC
CATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAAT
GGATGGCTTTCGCTTCACGTTTCCTAATGCAAACATCAAA
Found at i:12122652 original size:14 final size:15
Alignment explanation
Indices: 12122626--12122654 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12122616 ATATGTGTGT
12122626 ATAAGGTATGCCTAG
1 ATAAGGTATGCCTAG
12122641 ATAAGG-ATGCCTAG
1 ATAAGGTATGCCTAG
12122655 GCTAGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (15 bp):
ATAAGGTATGCCTAG
Found at i:12124094 original size:13 final size:13
Alignment explanation
Indices: 12124076--12124100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12124066 TTTCAGAAAA
12124076 TTTATAAAATCAT
1 TTTATAAAATCAT
12124089 TTTATAAAATCA
1 TTTATAAAATCA
12124101 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:12125611 original size:19 final size:19
Alignment explanation
Indices: 12125587--12125624 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12125577 CTACCAAACC
*
12125587 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
*
12125606 CTCAAATCATACTTCAATA
1 CTCAAATCATACTCCAATA
12125625 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:12127156 original size:2 final size:2
Alignment explanation
Indices: 12127144--12127187 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
12127134 ATAGGCTTAG
12127144 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12127185 AT A
1 AT A
12127188 GTAGTAGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12127249 original size:2 final size:2
Alignment explanation
Indices: 12127242--12127284 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
12127232 NNNNNNNNNN
12127242 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12127284 T
1 T
12127285 GAGATGTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12128241 original size:171 final size:170
Alignment explanation
Indices: 12127767--12132028 Score: 3376
Period size: 171 Copynumber: 25.0 Consensus size: 170
12127757 TCATGACAGC
* *
12127767 TTGCATT-GTGAAACGTGAAGC-AGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCCCAC
1 TTGCATTAG-GAAACGTGAAGCGA-ATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * ** *
12127830 ATGTCATCGAAAGCCTTGTTACTCAATTTAAATAGTTTTATAAT-TTATAAATGATTTTAAAT-A
64 ATGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCA
** *
12127893 GAAATCTTTTTTGTTTTTGGTTAAAACAGATCATAATTGGATGT
129 -AAATCTTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
* * * * * ** * *
12127937 TTGCATTCGGAAACATGAAGTGAA-ACTATTTATTTACAAGAAAAGTCCATTTATAGTCGCTCAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
** ** * * * * * * *
12128001 GCTTTATAAAGCATTGTTACTCGCTTTAAATGGTTTTCTAATCCTATAAAGGATTTCAAATCGAA
66 GCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAAA
*
12128066 ATCTTTTTCATTTTTGGTAAAACTTGATCATAATTGGATGT
131 ATCTTTTTCATTTTTGGTAAAACAT-ATCATAATTGGATGT
* * * * * * * *
12128107 TTACGTTGGGAAACGTGAAACGAATGCCATCCATTGACAAGAAAAATCCATTTGTAGTTACTCTT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * * *
12128172 GCCTTTGAAAGTCTCATTACTCGCTTTAAATTGTGTTT-GAATCTTATAAATGATTTTAAATCAA
66 GCCATCGAAAGCCTTATTACTCGCTTTAAATGGT-TTTATAATCTTATAAATGATTTTAAATCAA
** * ** *
12128236 AATCTTTTTTGTTTTTGGTTCAAACCCATCATAATTGGATGC
130 AATCTTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
* * * * * * **
12128278 TTG-AATAGGGAAACGTGAATCGAAAGGCAT-CATTGGATAAGTAAAGTCTGTTTATAGTCACTC
1 TTGCATTA-GGAAACGTGAAGCGAATGCCATCCATT-GACAAGAAAAGTCCATTTATAGTCACTC
* * ** * *
12128341 ACGCCTTTAAAAGCC-TAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATAATTTTAAATC
64 ATGCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATC
* * *
12128405 GAAATCTTTTTCATTTTTGGTGAAAACATATCATAATTGGTTTT
128 AAAATCTTTTTCATTTTTGGT-AAAACATATCATAATTGGATGT
* * * * * ** *
12128449 TTGCAAT-GGTAAACATGAAGCGGATGCAATCTATTGACAAGAAACTTCCTTTTATAGTCA-TGC
1 TTGCATTAGG-AAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-C
* ** * * *
12128512 ATGCCA-CTAAAAG-CAGAGTTACTTGCTTTAAATGGTTTTATAATCTTGTAAATGATTTAAAAT
64 ATGCCATC-GAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAAT
* * *
12128575 TAAAATCTTCTTCATTTTTGGATTAAATC-TATCATAATTGGATGT
127 CAAAATCTTTTTCATTTTTGG--TAAAACATATCATAATTGGATGT
* ** * ** * *
12128620 TTGCATCAAAAAATAG-GAAATGACTACCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
1 TTGCATTAGGAAA-CGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* ** * * *
12128684 TGCCATTGAAA-CCTTACTTACTCATTTTAGATTGTTTTATAATCTTATAAATGATTTCAAATCA
65 TGCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCA
* * *
12128748 AAATAATTTTTC--TTTTGGTTCAAACCTATCATAATTGGATG-
129 AAAT-CTTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
** * *
12128789 TTGCATTCA-GAAACGTGAAGC-AGATGATATCCATTGGCAAGAAAAGTCCATTTATAGTCACTT
1 TTGCATT-AGGAAACGTGAAGCGA-ATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * *
12128852 ATGCCTTCGAAAGCCTTGTTACTCGCTGTAAATAGTTTTATAATCTTATAAATGATTTTAGAGT-
64 ATGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTA-AATC
*** * *
12128916 AAAATCTTTTTTGGTTTTGGTTAAAACAGATCATAATTAGATGT
128 AAAATCTTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
* * * *
12128960 TTGCATTAGGAAATGTGAAGCAAATGCCATCCACTGACAAGAAAAGTCCATTTATATTCACTCAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * *
12129025 -CCATCGAAA-CCCTAGTTACTTGCTTTAAGTGGTTTTATAAT-TTATAAATGATTTTAAACCTA
66 GCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAA
* * *
12129087 AATCACTTTT-ATTTTTGGTTCAAACATATCATAATTAGATGT
130 AATC-TTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
* * * *
12129129 TTGCATCAGGAAATGTGAAATG-GAA-GGCATCCATTGATAAGAAAAGTCCATTTATAGTCACTC
1 TTGCATTAGGAAACGTG-AA-GCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * *
12129192 ATGCCATC-AAAGCCCTTGTTACTTGCTTTACATGGTTTTATAAT-ATATAAATGATTTTAAATA
64 ATGCCATCGAAAG-CCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATC
* *** * *
12129255 AAAATCTTTTTTGC-TGTTACTTCAAACATATCATAAATGGATGT
128 AAAATC-TTTTT-CATTTTTGGTAAAACATATCATAATTGGATGT
* * *
12129299 TTGCATTAGGGAAATGTGAAGTGGAA-GCCATTCATTGACAAGAAAAGTCCATTTATAGTCACTC
1 TTGCATTA-GGAAACGTGAAG-CGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * ** * * ** * *
12129363 GTGCGATCGAAAGCC-TAGTTACTCGCTTTAAATGACTTTACAATATTGCAAATGATTTTGAATT
64 ATGCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATC
* *
12129427 GAAATC-TTTTCTATTTTTGGTTAAAACAAATCATAATTGGATGT
128 AAAATCTTTTTC-ATTTTTGG-TAAAACATATCATAATTGGATGT
* * * *
12129471 TTGCAAT-CGAAA-GTGCGAAGCGGATGCCATCCATTGACAAGAAATA-TCCTTTTATAGTCACT
1 TTGCATTAGGAAACGT--GAAGCGAATGCCATCCATTGACAAGAAA-AGTCCATTTATAGTCACT
* * * * * ** *
12129533 CATGGCTTCAAAAGCCTTGTTACTTGCTGGAAATGGTTTGATAAT-TTATAAATGATTTTAAATC
63 CATGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATC
*** * ** * * * *
12129597 ATTTTTTTTTTCATTTTTCATTAAAGCATATTATTATTGGATAT
128 AAAATCTTTTTCATTTTT-GGTAAAACATATCATAATTGGATGT
* * * * * * *
12129641 TTGTATTAGGAAACATGAAAG-GGATGCCATCCATTGACAAGAAAAGTTCTTTTATAGTCACCCC
1 TTGCATTAGGAAACGTG-AAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * * * *
12129705 TACCTTTGAAAACC-TAGCTACTTGCCTTAAATGGTTTTATAATCTTGTAAATGATTTT-AATCG
65 TGCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCA
* *
12129768 AAATC-TTTTCATTTTTAGTTAAAATCA-ATTATAATTGGATGT
129 AAATCTTTTTCATTTTT-GGTAAAA-CATATCATAATTGGATGT
* * * * * * * * * * *
12129810 TTGCATCAGAAAACATGAAGTGGATACCATCCATTAATAGGAAAATTCCATTTATAG-CACTTAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * *
12129874 GCTATCGAAAGCC-TAGTTACTTGATTTAAATAGTTTTATAATCTTGTAAATGATTTTAAATCGA
66 GCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATC-A
* * * * *
12129938 TAA-CGTTTTT-GTTTTTGTTTCAAACATATTATAATTGGATGT
129 AAATC-TTTTTCATTTTTG-GTAAAACATATCATAATTGGATGT
* * * *
12129980 TTGCATAAGGAAACGGGAAGCAAATACCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * **
12130045 GCCATCAAAAGCC-TAGCTACTCACTTTAAATCATTTTATAATCTTATAAATGATTTTAAATCAA
66 GCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAA
* * *
12130109 AATCCTTTTTGC---TTTGGTTCAAACCTATCACAATTGGATGT
130 AAT-CTTTTT-CATTTTTGG-TAAAACATATCATAATTGGATGT
* * * * * * * * *
12130150 TTCCAAT-GGAAAACATGAAGTGGATGACATCCATTGATAAAACAAAGTCCATTTATAGTCACTT
1 TTGCATTAGG-AAACGTGAAGCGAATGCCATCCATTGACAAGA-AAAGTCCATTTATAGTCACTC
** * * *
12130214 ATGCGTTCGAAAGCCTTATTATTCACTTTAAATGATTTTATAATCTTATAAATGATTTTAAATCA
64 ATGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCA
** * *
12130279 AAATC-TTTT-ATGTTTTCAATTAAAACATACCATATTTGGATGT
129 AAATCTTTTTCAT-TTTT--GGTAAAACATATCATAATTGGATGT
* * * * * * * * * *
12130322 TTGTATTGGGAAATGTGAAGCAAATTCCATCCTTTGATAAGAAAAGTTCATATATAGTCATTCAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * *
12130387 -CCATCGAAA-CCCTAGTTACTCTG-TTTAAATGGTTTTATAAT-TTATAAATGATATTAAATCG
66 GCCATCGAAAGCCTTA-TTACTC-GCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCA
** *
12130448 AAATCTTTTTCATTTTTGGTTTTAACATATCATAATTCGATGT
129 AAATCTTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
* * * * * *
12130491 TTGCA-TCGAGAAACATGAAGCAGAA-GCCATCCATTGATAAGAAAAATCTA-TTAAAGTCACTC
1 TTGCATTAG-GAAACGTGAAGC-GAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * * *
12130553 GTGCCATCAAAATTCC-TGTTACTCGCTTTACATGGTTTTATAAT-ATATAAATGATTTTAGAT-
64 ATGCCATCGAAA-GCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATC
* * **
12130615 AGAAATCTTTTTCATTTTTAGTTAAAACAGATTGTAATTGGATGT
128 A-AAATCTTTTTCATTTTT-GGTAAAACATATCATAATTGGATGT
** * * * * * * * *
12130660 TTATATTGGGGAAACATGAAGCGAAAGTCATCCATTGATAAAAAAAGTCAATTTACAGTCACTCA
1 TTGCATT-AGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * *
12130725 TCCCTTTGAAAGCCTTATTGCTCACTTTAAATGGTTTTATAATCTTATAAATGATTTTGAATCAA
65 TGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAA
* * *
12130790 AATATTTTTCTTTTTTGGTTAAAA-TTGATCATAATTGGATGT
130 AATCTTTTTCATTTTTGG-TAAAACAT-ATCATAATTGGATGT
* * * * * *
12130832 TTGCATCATGAAATGTGAAGC-ATATGCCATCCATTGACCAGAAAAGTCCATTTATAGTCCCGCA
1 TTGCATTAGGAAACGTGAAGCGA-ATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * *
12130896 TG-CATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCCTGTAAAAGATTTAAAATGAA
65 TGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAA
* * *
12130960 AATATTTTTCATTTTTGGTTCAAACCTATCATAATTGGATGT
130 AATCTTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
* * * * *
12131002 TTGCATTAGAAAATGTGAATCAAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* *** * * **
12131067 GCCATTGAAAATGTAATTACTCG-TTCTAAATAGTTTTATAATC-TAGTAAATGATTTTAAATTG
66 GCCATCGAAAGCCTTATTACTCGCTT-TAAATGGTTTTATAATCTTA-TAAATGATTTTAAATCA
* * *** *
12131130 AAATCTTCTTCGTTTTCATTAAAACATATCATTATTGGATGT
129 AAATCTTTTTCATTTTTGGTAAAACATATCATAATTGGATGT
* * * * **
12131172 TTGTATTAGGAAACATGAAAC-AGATACCATCCATTGACAAGAAAAGTCTTTTTATAGTCACT-A
1 TTGCATTAGGAAACGTGAAGCGA-ATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * *
12131235 GTGCCTTCGAAAACCTTATTACTAGCCTTAAGTGGTTTTATAATCTTGTAAATGATTTTAAATTA
65 -TGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCA
*
12131300 AAATCTTTTTCATTTTTTGTTAAAATC-TATCATAATTGGATGT
129 AAATCTTTTTCA-TTTTTGGTAAAA-CATATCATAATTGGATGT
* * * * * * * * *
12131343 TTGCATCAGAAAACATGAAGCAAATGCCATCCATTTATAAGAAAAGGCCATTTATAG-CATTTAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * * **
12131407 GCTATCAAAAGCC-TAGTTACACGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATTGA
66 GCCATCGAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAA
* ** * * * *
12131471 TATCTTTTTTGTTTTTAGTTCAAACCTATCATAATTGGATAT
130 AATCTTTTTCATTTTT-GGTAAAACATATCATAATTGGATGT
* * * * * *
12131513 TTGCATCAGGAAATGGGAAGCGGATGTCATCCATTGACAAGAAAAGTCCATTTATAGTCACTTAT
1 TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * * * *
12131578 GCCATCAAAAGCCTAACTGCTCGCTTCAAATTGTTTTATAATCTTATAAATGATTTTAAATCGAA
66 GCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAAA
* * * * *
12131643 ATCATTTTC-TTTCTAGTTAAAAC-TGATCATATTTTGATGT
131 ATCTTTTTCATTT-TTGGTAAAACAT-ATCATAATTGGATGT
* * ** *
12131683 TTGCATCAAGAAACGTGAAGC-AGAT-TAATCCATTGACTAGAAAAGTCCATTTA-ATGTCACTC
1 TTGCATTAGGAAACGTGAAGCGA-ATGCCATCCATTGACAAGAAAAGTCCATTTATA-GTCACTC
** * * *
12131745 ATGCTTTCGAAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCA
64 ATGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCA
** *** * *
12131810 AAATCTTTTTTGTTTTTGGTTAATGTAGATCATATTTGGATGT
129 AAATCTTTTTCATTTTTGG-TAAAACATATCATAATTGGATGT
* * * * *
12131853 TTGGATT-GGAAAACATGAAGTGGATGCCATCCATTGACAAGAAAAGTCCATTCATAGTCACTCA
1 TTGCATTAGG-AAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * *
12131917 TGCCATCAAAAACCTTGTTATTTGCTTTAAATGGTTTTATAAT-TCATAAATGATTTTAAATCAA
65 TGCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAA
* * * *
12131981 AATCTTTTTCATTTTTAGTTAAAACAAATCATAATTGAATTT
130 AATCTTTTTCATTTTT-GGTAAAACATATCATAATTGGATGT
12132023 TTGCAT
1 TTGCAT
12132029 CGGGCAACAT
Statistics
Matches: 3270, Mismatches: 675, Indels: 294
0.77 0.16 0.07
Matches are distributed among these distances:
168 77 0.02
169 645 0.20
170 1152 0.35
171 1211 0.37
172 181 0.06
173 4 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (170 bp):
TTGCATTAGGAAACGTGAAGCGAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
GCCATCGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAAA
ATCTTTTTCATTTTTGGTAAAACATATCATAATTGGATGT
Found at i:12129502 original size:511 final size:510
Alignment explanation
Indices: 12127767--12132027 Score: 3568
Period size: 511 Copynumber: 8.3 Consensus size: 510
12127757 TCATGACAGC
** * * *
12127767 TTGCATT-GTGAAACGTGAAGCAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCCCACA
1 TTGCATTAG-GAAACGTGAAGTGGAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * ** * *
12127831 TGTCATCGAAAGCCTTGTTACTCAATTTAAAT-AGTTTTATAAT-TTATAAATGATTTTAAATAG
65 TGCCATCGAAAGCCTAGTTACTCGCTTTAAATGA-TTTTATAATCTTGTAAATGATTTTAAATCG
* * *
12127894 AAATCTTTTTTGTTTTTGGTTAAAACAGATCATAATTGGATGTTTGCATTCGGAAACAT-GAAG-
129 AAATC-TTTTTATTTTTGGTTAAAACATATCATAATTGGATGTTTGCAATC-GAAA-ATGGAAGC
* ** * ** * * * * * *
12127957 TGAAACTATTTATTTACAAGAAAAGTCCATTTATAGTCGCTCATG-CTTTATAAAGCATTGTTAC
191 AGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCA-AAAGCCTAGTTAC
* * * * *
12128021 TCGCTTTAAATGGTTTTCTAATCCTATAAAGGATTTCAAATCGAAATCTTTTTCATTTTTGG-TA
255 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCCTTTTCATTTTTGGTTA
* * * ** * *
12128085 AAACTTGATCATAATTGGATGTTTACGTTGGGAAACGTGAAA-CGAATGCCATCCATTGACAAGA
320 AAACAT-ATCATAATTGGATGTTTGCATCAGGAAACATGAAATGGAA-GCCATCCATTGACAAGA
* * * * * * * * * *
12128149 AAAATCCATTTGTAGTTACTCTTGCCTTTGAAAGTCTCATTACTCGCTTTAAATTGTGTTT-GAA
383 AAAGTCCATTTATAGTCACTCATGCC-TTCAAAGCCTTATTACTCACTTTAAATGGT-TTTATAA
* ** *
12128213 TCTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTCAAACCCATCATAATTGGATGC
446 TCTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAACATATCATAATTGGATGT
* * * * * **
12128278 TTG-AATAGGGAAACGTGAA-TCGAAAGGCAT-CATTGGATAAGTAAAGTCTGTTTATAGTCACT
1 TTGCATTA-GGAAACGTGAAGT-GGAAGCCATCCATT-GACAAGAAAAGTCCATTTATAGTCACT
* * ** * *
12128340 CACGCCTTTAAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATAATTTTAAATC
63 CATGCCATCGAAAGCCTAGTTACTCGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATC
* * * *
12128405 GAAATCTTTTTCATTTTTGGTGAAAACATATCATAATTGGTTTTTTGCAATGGTAAACAT-GAAG
128 GAAATCTTTTT-ATTTTTGGTTAAAACATATCATAATTGGATGTTTGCAATCG-AAA-ATGGAAG
* * * ** * **
12128469 CGGATGCAATCTATTGACAAGAAACTTCCTTTTATAGTCA-TGCATGCCA-CTAAAAGCAGAGTT
190 CAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-CATGCCATC-AAAAGCCTAGTT
* * * **
12128532 ACTTGCTTTAAATGGTTTTATAATCTTGTAAATGATTTAAAATTAAAAT-CTTCTTCATTTTTGG
253 ACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCCTT-TTCATTTTTGG
* ** * *
12128596 ATTAAATC-TATCATAATTGGATGTTTGCATCAAAAAATAGGAAAT-GACTA-CCATCCATTGAC
317 -TTAAAACATATCATAATTGGATGTTTGCATCAGGAAACATGAAATGGA--AGCCATCCATTGAC
* * * *
12128658 AAGAAAAGTCCATTTATAGTCACTCATGCCATTGAAA-CCTTACTTACTCATTTTAGATTGTTTT
379 AAGAAAAGTCCATTTATAGTCACTCATGCC-TTCAAAGCCTTA-TTACTCACTTTAAATGGTTTT
* ** * * *
12128722 ATAATCTTATAAATGATTTCAAATCAAAATAATTTTT-CTTTTGGTTCAAACCTATCATAATTGG
442 ATAATCTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAACATATCATAATTGG
12128786 ATG-
507 ATGT
** * ** * *
12128789 TTGCATTCA-GAAACGTGAAGCAGATGATATCCATTGGCAAGAAAAGTCCATTTATAGTCACTTA
1 TTGCATT-AGGAAACGTGAAGTGGAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * *
12128853 TGCCTTCGAAAGCCTTGTTACTCGCTGTAAAT-AGTTTTATAATCTTATAAATGATTTTAGAGT-
65 TGCCATCGAAAGCCTAGTTACTCGCTTTAAATGA-TTTTATAATCTTGTAAATGATTTTA-AATC
* * * * * *
12128916 AAAATCTTTTT-TGGTTTTGGTTAAAACAGATCATAATTAGATGTTTGCATTAGGAAATGTGAAG
128 GAAATCTTTTTAT--TTTTGGTTAAAACATATCATAATTGGATGTTTGCAATCGAAAATG-GAAG
* * * * *
12128980 CAAATGCCATCCACTGACAAGAAAAGTCCATTTATATTCACTCAT-CCATCGAAACCCTAGTTAC
190 CAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCTAGTTAC
* * * *
12129044 TTGCTTTAAGTGGTTTTATAAT-TTATAAATGATTTTAAACCTAAATCACTTTT-ATTTTTGGTT
255 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATC-CTTTTCATTTTTGGTT
* * ** * *
12129107 CAAACATATCATAATTAGATGTTTGCATCAGGAAATGTGAAATGGAAGGCATCCATTGATAAGAA
319 AAAACATATCATAATTGGATGTTTGCATCAGGAAACATGAAATGGAAGCCATCCATTGACAAGAA
* * ** *
12129172 AAGTCCATTTATAGTCACTCATGCCATCAAAGCCCTTGTTACTTGCTTTACATGGTTTTATAAT-
384 AAGTCCATTTATAGTCACTCATGCCTTCAAAG-CCTTATTACTCACTTTAAATGGTTTTATAATC
* * * * ** * *
12129236 ATATAAATGATTTTAAATAAAAATCTTTTTTGCTGTTACTTCAAACATATCATAAATGGATGT
448 TTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAACATATCATAATTGGATGT
* * *
12129299 TTGCATTAGGGAAATGTGAAGTGGAAGCCATTCATTGACAAGAAAAGTCCATTTATAGTCACTCG
1 TTGCATTA-GGAAACGTGAAGTGGAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * *
12129364 TGCGATCGAAAGCCTAGTTACTCGCTTTAAATGACTTTACAATATTGCAAATGATTTTGAATTGA
65 TGCCATCGAAAGCCTAGTTACTCGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATCGA
* * *
12129429 AATCTTTTCTATTTTTGGTTAAAACAAATCATAATTGGATGTTTGCAATCGAAAGTGCGAAGCGG
130 AATCTTTT-TATTTTTGGTTAAAACATATCATAATTGGATGTTTGCAATCGAAAATG-GAAGCAG
* * * * *
12129494 ATGCCATCCATTGACAAGAAATA-TCCTTTTATAGTCACTCATGGCTTCAAAAGCCTTGTTACTT
193 ATGCCATCCATTGACAAGAAA-AGTCCATTTATAGTCACTCATGCCATCAAAAGCCTAGTTACTC
** * ** ** **
12129558 GCTGGAAATGGTTTGATAAT-TTATAAATGATTTTAAATC-ATTTTTTTTTTCATTTTTCATTAA
257 GCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGA-AATCCTTTTCATTTTTGGTTAA
* * * * * * * *
12129621 AGCATATTATTATTGGATATTTGTATTAGGAAACATGAAAGGGATGCCATCCATTGACAAGAAAA
321 AACATATCATAATTGGATGTTTGCATCAGGAAACATGAAATGGAAGCCATCCATTGACAAGAAAA
* * * * * * * * ** *
12129686 GTTCTTTTATAGTCACCCCTACCTTTGAAAACC-TAGCTACTTGCCTTAAATGGTTTTATAATCT
386 GTCCATTTATAGTCACTCATGCC-TTCAAAGCCTTA-TTACTCACTTTAAATGGTTTTATAATCT
* * ** * *
12129750 TGTAAATGATTTT-AATCGAAATC-TTTTCATTTTTAGTTAAAATCA-ATTATAATTGGATGT
449 TATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAA-CATATCATAATTGGATGT
* * * * * * * *
12129810 TTGCATCAGAAAACATGAAGTGGATA-CCATCCATTAATAGGAAAATTCCATTTATAG-CACTTA
1 TTGCATTAGGAAACGTGAAGTGGA-AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * *
12129873 TGCTATCGAAAGCCTAGTTACTTGATTTAAAT-AGTTTTATAATCTTGTAAATGATTTTAAATCG
65 TGCCATCGAAAGCCTAGTTACTCGCTTTAAATGA-TTTTATAATCTTGTAAATGATTTTAAATCG
* * * * ** **
12129937 ATAA-CGTTTTTGTTTTTGTTTCAAACATATTATAATTGGATGTTTGCATAAGGAAACGGGAAGC
129 A-AATC-TTTTTATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA-ATCGAAAATGGAAGC
* * *
12130001 AAATACCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCTAGCTACT
191 AGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCTAGTTACT
* ** * * *
12130066 CACTTTAAATCATTTTATAATCTTATAAATGATTTTAAATCAAAATCCTTTT--TGCTTTGGTTC
256 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCCTTTTCAT-TTTTGGTTA
* * * * * * * *
12130129 AAACCTATCACAATTGGATGTTTCCA--ATGGAAAACATGAAGTGGATGACATCCATTGATAAAA
320 AAACATATCATAATTGGATGTTTGCATCA-GG-AAACATGAAATGGAAGCCATCCATTGACAAGA
* * * *
12130192 CAAAGTCCATTTATAGTCACTTATGCGTTCGAAAGCCTTATTATTCACTTTAAATGATTTTATAA
383 -AAAGTCCATTTATAGTCACTCATGCCTTC-AAAGCCTTATTACTCACTTTAAATGGTTTTATAA
* *** * *
12130257 TCTTATAAATGATTTTAAATCAAAATCTTTTATGTTTTCAATTAAAACATACCATATTTGGATGT
446 TCTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAACATATCATAATTGGATGT
* * * ** * * * * * *
12130322 TTGTATTGGGAAATGTGAAG-CAAATTCCATCCTTTGATAAGAAAAGTTCATATATAGTCATTCA
1 TTGCATTAGGAAACGTGAAGTGGAA-GCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * *
12130386 T-CCATCGAAACCCTAGTTACTCTG-TTTAAATGGTTTTATAAT-TTATAAATGATATTAAATCG
65 TGCCATCGAAAGCCTAGTTACTC-GCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATCG
** *
12130448 AAATCTTTTTCATTTTTGGTTTTAACATATCATAATTCGATGTTTGC-ATCGAGAAACAT-GAAG
129 AAATCTTTTT-ATTTTTGGTTAAAACATATCATAATTGGATGTTTGCAATC--GAAA-ATGGAAG
* * * * * * *
12130511 CAGAAGCCATCCATTGATAAGAAAAATCTA-TTAAAGTCACTCGTGCCATCAAAATTCCT-GTTA
190 CAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAA-GCCTAGTTA
* * * * * *
12130574 CTCGCTTTACATGGTTTTATAAT-ATATAAATGATTTTAGATAGAAATCTTTTTCATTTTTAGTT
254 CTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCCTTTTCATTTTTGGTT
* ** ** ** ** * * * *
12130638 AAAACAGATTGTAATTGGATGTTTATATTGGGGAAACATGAAGCGAAAGTCATCCATTGATAAAA
319 AAAACATATCATAATTGGATGTTTGCA-TCAGGAAACATGAAATGGAAGCCATCCATTGACAAGA
* * * * *
12130703 AAAGTCAATTTACAGTCACTCATCCCTTTGAAAGCCTTATTGCTCACTTTAAATGGTTTTATAAT
383 AAAGTCCATTTATAGTCACTCATGCC-TTCAAAGCCTTATTACTCACTTTAAATGGTTTTATAAT
* * *
12130768 CTTATAAATGATTTTGAATCAAAATATTTTTCT-TTTTTGGTTAAAA-TTGATCATAATTGGATG
447 CTTATAAATGATTTTAAATCAAAATCTTTTT-TGTTTTTGGTTAAAACAT-ATCATAATTGGATG
12130831 T
510 T
* * * *** * * * *
12130832 TTGCATCATGAAATGTGAAGCATATGCCATCCATTGACCAGAAAAGTCCATTTATAGTCCCGCAT
1 TTGCATTAGGAAACGTGAAGTGGAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * *
12130897 G-CATCAAAAGCCTTA-TTACTCGCTTTAAATGGTTTTATAATCCTGTAAAAGATTTAAAAT-GA
66 GCCATCGAAAGCC-TAGTTACTCGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATCG-
* * * * * *
12130959 AAATATTTTTCATTTTTGGTTCAAACCTATCATAATTGGATGTTTGCATTAGAAAATGTGAATCA
129 AAATCTTTTT-ATTTTTGGTTAAAACATATCATAATTGGATGTTTGCAATCGAAAATG-GAAGCA
* * * *
12131024 AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATTGAAAATG--TAATTAC
192 GATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCA-TCAAAA-GCCTAGTTAC
* * * **
12131087 TCG-TTCTAAATAGTTTTATAATC-TAGTAAATGATTTTAAATTGAAAT-CTTCTTC-GTTTTCA
255 TCGCTT-TAAATGGTTTTATAATCTTA-TAAATGATTTTAAATCGAAATCCTT-TTCATTTTTGG
* * * **
12131148 TTAAAACATATCATTATTGGATGTTTGTATTAGGAAACATGAAACAGATA-CCATCCATTGACAA
317 TTAAAACATATCATAATTGGATGTTTGCATCAGGAAACATGAAATGGA-AGCCATCCATTGACAA
** * * *
12131212 GAAAAGTCTTTTTATAGTCACT-AGTGCCTTCGAAAACCTTATTACT-AGCCTTAAGTGGTTTTA
381 GAAAAGTCCATTTATAGTCACTCA-TGCCTTC-AAAGCCTTATTACTCA-CTTTAAATGGTTTTA
* * ** *
12131275 TAATCTTGTAAATGATTTTAAATTAAAATCTTTTTCATTTTTTGTTAAAATC-TATCATAATTGG
443 TAATCTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAA-CATATCATAATTGG
12131339 ATGT
507 ATGT
* * * ** * * * * *
12131343 TTGCATCAGAAAACATGAAG-CAAATGCCATCCATTTATAAGAAAAGGCCATTTATAG-CATTTA
1 TTGCATTAGGAAACGTGAAGTGGAA-GCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * *
12131406 TGCTATCAAAAGCCTAGTTACACGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATTGA
65 TGCCATCGAAAGCCTAGTTACTCGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATCGA
* * * * * * * *
12131471 TATCTTTTTTGTTTTTAGTTCAAACCTATCATAATTGGATATTTGC-ATCAGGAAATGGGAAGCG
130 AATC-TTTTTATTTTTGGTTAAAACATATCATAATTGGATGTTTGCAATC-GAAAAT-GGAAGCA
* * ** *
12131535 GATGTCATCCATTGACAAGAAAAGTCCATTTATAGTCACTTATGCCATCAAAAGCCTAACTGCTC
192 GATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCTAGTTACTC
* * * * *
12131600 GCTTCAAATTGTTTTATAATCTTATAAATGATTTTAAATCGAAATCATTTTC-TTTCTAGTTAAA
257 GCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCCTTTTCATTTTTGGTTAAA
* * * * * *** *
12131664 AC-TGATCATATTTTGATGTTTGCATCAAGAAACGTG-AA-GCAGATTAATCCATTGACTAGAAA
322 ACAT-ATCATAATTGGATGTTTGCATCAGGAAACATGAAATGGA-AGCCATCCATTGACAAGAAA
* * *
12131726 AGTCCATTTA-ATGTCACTCATGCTTTCGAAAGCCTTGTTACTCACTTTAAATAGTTTTATAATC
385 AGTCCATTTATA-GTCACTCATGCCTTC-AAAGCCTTATTACTCACTTTAAATGGTTTTATAATC
*** * *
12131790 TTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAATGTAGATCATATTTGGATGT
448 TTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAACATATCATAATTGGATGT
* * * *
12131853 TTGGATT-GGAAAACATGAAGTGGATGCCATCCATTGACAAGAAAAGTCCATTCATAGTCACTCA
1 TTGCATTAGG-AAACGTGAAGTGGAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * ** *
12131917 TGCCATCAAAAACCTTGTTATTTGCTTTAAATGGTTTTATAAT-TCATAAATGATTTTAAATCAA
65 TGCCATCGAAAGCCTAGTTACTCGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATCGA
* * * *
12131981 AATCTTTTTCATTTTTAGTTAAAACAAATCATAATTGAATTTTTGCA
130 AATCTTTTT-ATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA
12132028 TCGGGCAACA
Statistics
Matches: 3011, Mismatches: 602, Indels: 274
0.77 0.15 0.07
Matches are distributed among these distances:
507 1 0.00
508 41 0.01
509 407 0.14
510 688 0.23
511 1134 0.38
512 466 0.15
513 265 0.09
514 3 0.00
515 6 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (510 bp):
TTGCATTAGGAAACGTGAAGTGGAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
GCCATCGAAAGCCTAGTTACTCGCTTTAAATGATTTTATAATCTTGTAAATGATTTTAAATCGAA
ATCTTTTTATTTTTGGTTAAAACATATCATAATTGGATGTTTGCAATCGAAAATGGAAGCAGATG
CCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCTAGTTACTCGCTT
TAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCCTTTTCATTTTTGGTTAAAACAT
ATCATAATTGGATGTTTGCATCAGGAAACATGAAATGGAAGCCATCCATTGACAAGAAAAGTCCA
TTTATAGTCACTCATGCCTTCAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTTATAAAT
GATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAACATATCATAATTGGATGT
Found at i:12133041 original size:35 final size:35
Alignment explanation
Indices: 12132995--12133065 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
12132985 CCATGGGGTA
* *
12132995 CATCTTCCTACATTCAGCCTACTACACCAGGAGTT
1 CATCTCCCTACATTCAGCCTACTACACCAGAAGTT
* *
12133030 CATCTCCCTACATTCAGCCTTCTACATCAGAAGTT
1 CATCTCCCTACATTCAGCCTACTACACCAGAAGTT
12133065 C
1 C
12133066 TTCCCCCAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.35, G:0.10, T:0.30
Consensus pattern (35 bp):
CATCTCCCTACATTCAGCCTACTACACCAGAAGTT
Found at i:12137854 original size:30 final size:31
Alignment explanation
Indices: 12137813--12137880 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
12137803 GCAATTTGAT
12137813 CCTTCAACTTTTTACTAATTACAACTT-CACC
1 CCTTCAACTTTTTACTAATTACAA-TTCCACC
* *
12137844 CCTT-AACTTTTTATTATTTACAATTCCACC
1 CCTTCAACTTTTTACTAATTACAATTCCACC
12137874 CC-TCAAC
1 CCTTCAAC
12137881 ATCTTATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 26 0.79
31 4 0.12
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (31 bp):
CCTTCAACTTTTTACTAATTACAATTCCACC
Found at i:12137888 original size:30 final size:30
Alignment explanation
Indices: 12137831--12137888 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
12137821 TTTTTACTAA
* * *
12137831 TTACAACTTCACCCCTTAACTTTTTATTAT
1 TTACAACTTCACCCCTCAACATCTTATTAT
12137861 TTACAA-TTCCACCCCTCAACATCTTATT
1 TTACAACTT-CACCCCTCAACATCTTATT
12137889 CTTCTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (30 bp):
TTACAACTTCACCCCTCAACATCTTATTAT
Found at i:12138208 original size:18 final size:19
Alignment explanation
Indices: 12138170--12138209 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
12138160 AAATTATTTT
12138170 AATATTATTTTATTCAAAA
1 AATATTATTTTATTCAAAA
*
12138189 AATATTGTTTTATT-AAAA
1 AATATTATTTTATTCAAAA
12138207 AAT
1 AAT
12138210 TCCTTTCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATTATTTTATTCAAAA
Found at i:12138892 original size:168 final size:165
Alignment explanation
Indices: 12138481--12140712 Score: 1210
Period size: 171 Copynumber: 13.2 Consensus size: 165
12138471 CAAGAGTGAT
* * * * * *
12138481 CTATTGACAAGAAAAGTTCATTTATATTCACTCATGTATTCGAAATTCATT-TCACTC-CTATTA
1 CTATTGACAA-AAAAGTCCATTTATAGTCACTCATGCATTCGAAA-GCTTTGTTACTCACT-TTA
* *
12138544 AATAGTTTTATAATCTTATAAATGA-TTTAAATCGAAATCTTTTTCATTTTTGGTTAAAATCGAT
63 AATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTT--TTTTTTGTTAAAATCGAT
* * *
12138608 CATAATTGGATGTTTGCATCGGGAAACGTGAAGTGAATGC
126 CATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
* * * * *
12138648 CATCAATTGACAAAAAAAGTTCATTGATAGTCACTTATGCCA-TCGAAAG-TCTAGTTACTCGCT
1 C-T--ATTGAC-AAAAAAGTCCATTTATAGTCACTCATG-CATTCGAAAGCT-TTGTTACTCACT
* * *
12138711 TTAAATGGTTTTATAATCTTATCAATGATTTTAAATCAAAATCTTTTTTTGGGTTTTGATTCAAA
60 TTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTTT---TTTTG-TTAAAA
* * * * *
12138776 CCCATCATAATTGGATGTTTCCATTGGGAAACATAAAGCGGATG-
121 TCGATCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
* * * *
12138820 CTATTGATAAGAAAGTCCATTTATAGTCACTCATGCGTTCTAAAGCTTTGTTACTC-CTTTTAAA
1 CTATTGACAAAAAAGTCCATTTATAGTCACTCATGCATTCGAAAGCTTTGTTACTCAC-TTTAAA
* *
12138884 TAGTTTTATAATCTTATAAATGATTTTAAATCAAAA--TTTTTTTTTTAGTTAAAATAGATCATA
65 TAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTTTTTTTGTTAAAATCGATCATA
* *
12138947 TTTGGATGTTTGCATCGGGAAACATGAAGCAGATGCC
130 ATTGGATGTTTGCATCGGGAAACATGAAGCGGATG-C
* * * * * *
12138984 ATCTATTGACAAAAAAGGCTATTTCTAGTCACTCATGCATT-AAAACCCTTGTTACTCACTTTAA
1 --CTATTGACAAAAAAGTCCATTTATAGTCACTCATGCATTCGAAAGCTTTGTTACTCACTTTAA
* * * *
12139048 ATGGTTTTATAAT-TTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGATAAAA-CAAGT
64 ATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTT--TTTTTTGTTAAAATCGA-T
* * ** * *
12139111 CATAATTAGATGTTTGCCTC-AAAAAGCATGCAGCGGAAGC
126 CATAATTGGATGTTTGCATCGGGAAA-CATGAAGCGGATGC
* * * ** * *
12139151 CATCCATTTACAAGAAAAATCAATTTATAGTCGA-TCATGGC-TTTAAAAGCCTTGTTACTCTCT
1 C-T--ATTGACAA-AAAAGTCCATTTATAGTC-ACTCAT-GCATTCGAAAGCTTTGTTACTCACT
* * * * ** * *
12139214 GTAAATAGTTTTATAATCTTATAAATTATTTTACA-CTAAAATATTTGCTTTGTTGCTTCAAAAC
60 TTAAATAGTTTTATAATCTTATAAATGATTTTAAATC-AAAATCTTTTTTTTTTTG-TT-AAAAT
* * * * * * *
12139278 CTATCATAGTTGGATGTTTTCATTGGTAATCATGAAGAGGATGC
122 CGATCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
* * * * *
12139322 CATCCATTGACACGAAAAGTCCATTTATAGTCACTCAGGCCTTCGAAAGCCTTGTTACTCATTTT
1 C-T--ATTGACA-AAAAAGTCCATTTATAGTCACTCATGCATTCGAAAGCTTTGTTACTCACTTT
* * ** * * * * * *
12139387 AAATGGTTTTATAATCATATAAACAATTTTATATCAAAATCCTTTTCATTTTTGGTTTAAACCTA
62 AAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAAT-CTTTT-TTTTTTTGTTAAAATCGA
* * ***
12139452 TCATAATTGGATGTTTGCATTC-GAAAACTTGAAGTTTATGC
125 TCATAATTGGATGTTTGCA-TCGGGAAACATGAAGCGGATGC
* * * * * * **
12139493 CATCCATTAACAAGAAAAGTCCATTTATAGTCATTCATGCCTTCAAAAG-TCTTATTCCTTGCTT
1 C-T--ATTGACAA-AAAAGTCCATTTATAGTCACTCATGCATTCGAAAGCT-TTGTTACTCACTT
* * * *
12139557 TAAAT-GTTTTTATAATCTTATAAATGATTTTGAA-CAGAAATCGTTTTCATCTTTTGTCAAAA-
61 TAAATAG-TTTTATAATCTTATAAATGATTTTAAATCA-AAATC-TTTT-TTTTTTTGTTAAAAT
* * * * * * **
12139619 CAAATGATATTTGGATGTTTGCATTGAGAAACTTGAAGCAAATGCC
122 C-GATCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATG-C
* * * **
12139665 ATCTATTGATAAGAATAGTCCATTTATAGTCACTCATGCCA-TC-ATAAGCCTTGTTACTTGCTT
1 --CTATTGACAA-AAAAGTCCATTTATAGTCACTCATG-CATTCGA-AAGCTTTGTTACTCACTT
* * ** ** ** * *
12139728 TAAATGGTTTTATAATGTTCCAAACAATTTTAAATTGAAA---TTTTTTTTTTGTTCAAA-CTAT
61 TAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTTTTTTTGTTAAAATCGAT
* ** *
12139789 CATAATTGAATGTTTACGC-T-GGTG-AATGTGAAGTGGATGC
126 CATAATTGGATGTTT--GCATCGG-GAAACATGAAGCGGATGC
* * * * * * * * *
12139829 AATCCATTGATAAGAAAAGGCCATTTATAGTTACCCATGC-TCTAGAAAGCATTATTACTCGCTT
1 ---CTATTGACAA-AAAAGTCCATTTATAGTCACTCATGCAT-TCGAAAGCTTTGTTACTCACTT
* ** * * * *
12139893 TAAAT-GATTTTATAATCATACCAAGGATTTTAAATCGAAATGGTTTTTATTTTTGGTTAAAATC
61 TAAATAG-TTTTATAATCTTATAAATGATTTTAAATCAAAAT-CTTTTT-TTTTTTGTTAAAATC
* ** * ** *
12139957 AATCATAATTGGATGTTTGCATAAGCAAATGTGAAACGGATGC
123 GATCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
** * * * * **
12140000 CATCCATTGACAAGAAAAGTCTGTTTATAGTAACTTATGCCTTCGAAAGCATTGTTACTTGCTTT
1 C-T--ATTGACAA-AAAAGTCCATTTATAGTCACTCATGCATTCGAAAGCTTTGTTACTCACTTT
* * ** * * * * *
12140065 AAATGGTTTTACAA-CTTGCATATGATTTTAAATCAAAATATTTTTCATTTTTGGTTAATATCAA
62 AAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTT--TTTTTTGTTAAAATCGA
* * * *
12140129 TAATAATTGGATGTTTGCATCGGGAAACGTGAAGTGGATTC
125 TCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
* * * * ** *
12140170 ATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCTAGT-GAAAGCCTAATGACAT-ACTT
1 --CTATTGACAA-AAAAGTCCATTTATAGTCACTCATGC-ATTCGAAAGCTTTGTTAC-TCACTT
* * * * * *
12140233 AAAATGGTTTTATAATCTTATAAATGATTTCAAACCAAAATCTTTTTCATTTTTGGTTAAAATAG
61 TAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTT--TTTTTTGTTAAAATCG
* ** * * * **
12140298 GTTGTAATTGGATGTTTGCATCAGGAAACTTGAAGCAGAAAC
124 ATCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
* * * * * * ** **
12140340 CATCCATGGATAAGAAAAGTCCATTTATAGTCACTAATGCAATT-AAAAACCTTACTACTTGCTT
1 C-T--ATTGACAA-AAAAGTCCATTTATAGTCACTCATGC-ATTCGAAAGCTTTGTTACTCACTT
* * * * *
12140404 TAAATGGTTTTATAATCTTATAAATGACTTTAAATCGAAGTCTTTTTTATTTTTGGTTAAAATCA
61 TAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTT-TTTTT-GTTAAAATCG
* * ** *
12140469 ATCATAATTGGATGTGTGCATCAGGAAATTTGAAGTGGATGC
124 ATCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
* * * * *
12140511 CATCCATTGACAAGAAAAG-CCTATTTATAGTCACTCATGCCTTCAAAAGCCTTATTATTCACTT
1 C-T--ATTGACAA-AAAAGTCC-ATTTATAGTCACTCATGCATTCGAAAGCTTTGTTACTCACTT
* ** * ** *
12140575 TAAATTA-TTTTATAATCTTATTAATGATTGCAAATCAAAATAGTTTTTGATTTTGCTTAAAATA
61 TAAA-TAGTTTTATAATCTTATAAATGATTTTAAATCAAAAT-CTTTTTTTTTTTG-TTAAAATC
* * * ** *
12140639 GATCATATTTGGAAGTTTACATTAGGAAACATGAAGCAGATGC
123 GATCATAATTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
* *
12140682 CATCCATTAACAGGAAAAGTCCATTTATAGT
1 C-T--ATTGACA-AAAAAGTCCATTTATAGT
12140713 ATAATACCCC
Statistics
Matches: 1636, Mismatches: 326, Indels: 202
0.76 0.15 0.09
Matches are distributed among these distances:
162 41 0.03
163 4 0.00
164 26 0.02
165 136 0.08
166 61 0.04
167 13 0.01
168 126 0.08
169 103 0.06
170 278 0.17
171 770 0.47
172 30 0.02
173 47 0.03
174 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (165 bp):
CTATTGACAAAAAAGTCCATTTATAGTCACTCATGCATTCGAAAGCTTTGTTACTCACTTTAAAT
AGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTTTTTTTGTTAAAATCGATCATAA
TTGGATGTTTGCATCGGGAAACATGAAGCGGATGC
Found at i:12139497 original size:342 final size:340
Alignment explanation
Indices: 12138541--12140712 Score: 1630
Period size: 342 Copynumber: 6.4 Consensus size: 340
12138531 TTCACTCCTA
*
12138541 TTAAATAGTTTTATAATCTTATAAATGA-TTTAAATCGAAATCTTTTTCATTTTTGGTTAAAATC
1 TTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATC-TTTTCATTTTT-GTTAAAA-C
* * ** * *
12138605 -GATCATAATTGGATGTTTGCATCGGGAAACGTGAAGTGAATGCCATCAATTGACAAAAAAAGTT
63 AGATCATATTTGGATGTTTGCATCGGGAAACATGAAGCAAATGCCATCTATTGACAAAAAAAGTC
* * * * * *
12138669 CATTGATAGTCACTTATGCCATCGAAAGTCTAGTTACTCGCTTTAAATGGTTTTATAATCTTATC
128 CATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAATCTTATA
** * * * *
12138734 AATGATTTTAAATCAAAAT-CTTTTTTTGGGTTTTGATTCAAACCCATCATAATTGGATGTTTCC
193 AATGATTTTAAATCAAAATCCTTTTCAT---TTTTGGTTTAAACCAATCATAATTGGATGTTTGC
* * * * *
12138798 ATTGGGAAACATAAAGCGGATG-C-T--ATTGATAAG-AAAGTCCATTTATAGTCACTCAT-GCG
255 ATTCGAAAACATGAAGCGGATGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACTCATGGC-
*
12138857 TTCT-AAAGCTTTGTTACTC-CTT
319 TT-TAAAAGCCTTGTTACTCTC-T
*
12138879 TTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAAT-TTTT--TTTTTAGTTAAAATAG
1 TTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTCATTTTT-GTTAAAACAG
* * *
12138941 ATCATATTTGGATGTTTGCATCGGGAAACATGAAGCAGATGCCATCTATTGAC-AAAAAAGGCTA
65 ATCATATTTGGATGTTTGCATCGGGAAACATGAAGCAAATGCCATCTATTGACAAAAAAAGTCCA
* ** *
12139005 TTTCTAGTCACTCATG-CATTAAAACCCTTGTTACTCACTTTAAATGGTTTTATAAT-TTATAAA
130 TTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAATCTTATAAA
* * * * *
12139068 TGATTTTAAATCAAAATCTTTTTCATTTTTGG-ATAAAACAAGTCATAATTAGATGTTTGC-CTC
195 TGATTTTAAATCAAAATCCTTTTCATTTTTGGTTTAAACCAA-TCATAATTGGATGTTTGCATTC
* * * * * *
12139131 AAAAAGCATGCAGCGGAAGCCATCCATTTACAAGAAAAATCAATTTATAGTCGA-TCATGGCTTT
259 GAAAA-CATGAAGCGGATGCCATCCATTAACAAGAAAAGTCCATTTATAGTC-ACTCATGGCTTT
12139195 AAAAGCCTTGTTACTCTCT
322 AAAAGCCTTGTTACTCTCT
* * * * *
12139214 GTAAATAGTTTTATAATCTTATAAATTATTTTACA-CTAAAATATTTGC-TTTGTTGCTTCAAAA
1 TTAAATAGTTTTATAATCTTATAAATGATTTTAAATC-AAAATCTTTTCATTT-TTG-TT-AAAA
** * * * * * * * **
12139277 CCTATCATAGTTGGATGTTTTCATTGGTAATCATGAAG-AGGATGCCATCCATTGACACGAAAAG
62 CAGATCATATTTGGATGTTTGCATCGGGAAACATGAAGCA-AATGCCATCTATTGACAAAAAAAG
* * * *
12139341 TCCATTTATAGTCACTCAGGCCTTCGAAAGCCTTGTTACTCATTTTAAATGGTTTTATAATCATA
126 TCCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAATCTTA
** * *
12139406 TAAACAATTTTATATCAAAATCCTTTTCATTTTTGGTTTAAACCTATCATAATTGGATGTTTGCA
191 TAAATGATTTTAAATCAAAATCCTTTTCATTTTTGGTTTAAACCAATCATAATTGGATGTTTGCA
* *** * *
12139471 TTCGAAAACTTGAAGTTTATGCCATCCATTAACAAGAAAAGTCCATTTATAGTCATTCATGCCTT
256 TTCGAAAACATGAAGCGGATGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACTCATGGCTT
* * * *
12139536 CAAAAGTCTTATTCCT-TGCT
321 TAAAAGCCTTGTTACTCT-CT
* *
12139556 TTAAAT-GTTTTTATAATCTTATAAATGATTTTGAA-CAGAAATCGTTTTCATCTTTTGTCAAAA
1 TTAAATAG-TTTTATAATCTTATAAATGATTTTAAATCA-AAATC-TTTTCAT-TTTTGTTAAAA
* * * * * * * *
12139619 CAAATGATATTTGGATGTTTGCATTGAGAAACTTGAAGCAAATGCCATCTATTGATAAGAATAGT
62 CAGATCATATTTGGATGTTTGCATCGGGAAACATGAAGCAAATGCCATCTATTGACAAAAAAAGT
** * *
12139684 CCATTTATAGTCACTCATGCCATC-ATAAGCCTTGTTACTTGCTTTAAATGGTTTTATAATGTTC
127 CCATTTATAGTCACTCATGCCATCGA-AAGCCTTGTTACTCACTTTAAATGGTTTTATAATCTTA
* ** ** * * * * *
12139748 CAAACAATTTTAAATTGAAAT--TTTT--TTTTT-GTTCAAA-CTATCATAATTGAATGTTTACG
191 TAAATGATTTTAAATCAAAATCCTTTTCATTTTTGGTTTAAACCAATCATAATTGGATGTTTGCA
* * ** ** * * * * * * * *
12139807 CTGGTGAATGTGAAGTGGATGCAATCCATTGATAAGAAAAGGCCATTTATAGTTACCCAT-GCTC
256 TTCGAAAACATGAAGCGGATGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACTCATGGCTT
* * *
12139871 TAGAAAGCATTATTACTCGCT
321 TA-AAAGCCTTGTTACTCTCT
* ** * * * *
12139892 TTAAAT-GATTTTATAATCATACCAAGGATTTTAAATCGAAATGGTTTTTATTTTTGGTTAAAAT
1 TTAAATAG-TTTTATAATCTTATAAATGATTTTAAATCAAAAT-CTTTTCATTTTT-GTTAAAA-
* ** * ** * ** * *
12139956 CA-ATCATAATTGGATGTTTGCATAAGCAAATGTGAAACGGATGCCATCCATTGACAAGAAAAGT
62 CAGATCATATTTGGATGTTTGCATCGGGAAACATGAAGCAAATGCCATCTATTGACAAAAAAAGT
** * * * * ** * **
12140020 CTGTTTATAGTAACTTATGCCTTCGAAAGCATTGTTACTTGCTTTAAATGGTTTTACAA-CTTGC
127 CCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAATCTTAT
* ** * *
12140084 ATATGATTTTAAATCAAAATATTTTTCATTTTTGG-TTAATATCAATAATAATTGGATGTTTGCA
192 AAATGATTTTAAATCAAAATCCTTTTCATTTTTGGTTTAA-ACCAATCATAATTGGATGTTTGCA
* * * * * *
12140148 -TCGGGAAACGTGAAGTGGAT-TCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAAT-GCT
256 TTC-GAAAACATGAAGCGGATGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACTCATGGCT
* * ** * *
12140210 AGTGAAAGCCTAATGACAT-ACT
320 -TTAAAAGCCTTGTTAC-TCTCT
* * * * *
12140232 TAAAATGGTTTTATAATCTTATAAATGATTTCAAACCAAAATCTTTTTCATTTTTGGTTAAAATA
1 TTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATC-TTTTCATTTTT-GTTAAAACA
* ** * * * * * * * *
12140297 GGTTGTAATTGGATGTTTGCATCAGGAAACTTGAAGCAGAA-ACCATCCATGGATAAGAAAAGTC
64 GATCATATTTGGATGTTTGCATCGGGAAACATGAAGCA-AATGCCATCTATTGACAAAAAAAGTC
* * ** * ** **
12140361 CATTTATAGTCACTAATGCAATTAAAAACCTTACTACTTGCTTTAAATGGTTTTATAATCTTATA
128 CATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAATCTTATA
* * * * * * * *
12140426 AATGACTTTAAATCGAAGTCTTTTTTATTTTTGGTTAAAATCAATCATAATTGGATGTGTGCA-T
193 AATGATTTTAAATCAAAATCCTTTTCATTTTTGGTTTAAACCAATCATAATTGGATGTTTGCATT
* ** * * *
12140490 CAGGAAATTTGAAGTGGATGCCATCCATTGACAAGAAAAG-CCTATTTATAGTCACTCATGCCTT
258 C-GAAAACATGAAGCGGATGCCATCCATTAACAAGAAAAGTCC-ATTTATAGTCACTCATGGCTT
* * * *
12140554 CAAAAGCCTTATTATTCACT
321 TAAAAGCCTTGTTACTCTCT
* ** * *
12140574 TTAAATTA-TTTTATAATCTTATTAATGATTGCAAATCAAAATAGTTTTTGA-TTTTGCTTAAAA
1 TTAAA-TAGTTTTATAATCTTATAAATGATTTTAAATCAAAAT--CTTTTCATTTTTG-TTAAAA
* * * ** * * * **
12140637 TAGATCATATTTGGAAGTTTACATTAGGAAACATGAAGCAGATGCCATCCATTAACAGGAAAAGT
62 CAGATCATATTTGGATGTTTGCATCGGGAAACATGAAGCAAATGCCATCTATTGACAAAAAAAGT
12140702 CCATTTATAGT
127 CCATTTATAGT
12140713 ATAATACCCC
Statistics
Matches: 1473, Mismatches: 294, Indels: 130
0.78 0.15 0.07
Matches are distributed among these distances:
329 9 0.01
330 31 0.02
331 1 0.00
332 24 0.02
333 39 0.03
334 30 0.02
335 158 0.11
336 227 0.15
337 22 0.01
338 38 0.03
339 70 0.05
340 218 0.15
341 151 0.10
342 423 0.29
343 26 0.02
344 4 0.00
345 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (340 bp):
TTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTCATTTTTGTTAAAACAGA
TCATATTTGGATGTTTGCATCGGGAAACATGAAGCAAATGCCATCTATTGACAAAAAAAGTCCAT
TTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCACTTTAAATGGTTTTATAATCTTATAAAT
GATTTTAAATCAAAATCCTTTTCATTTTTGGTTTAAACCAATCATAATTGGATGTTTGCATTCGA
AAACATGAAGCGGATGCCATCCATTAACAAGAAAAGTCCATTTATAGTCACTCATGGCTTTAAAA
GCCTTGTTACTCTCT
Found at i:12140288 original size:847 final size:840
Alignment explanation
Indices: 12138543--12140712 Score: 2046
Period size: 847 Copynumber: 2.6 Consensus size: 840
12138533 CACTCCTATT
* * * *
12138543 AAATAGTTTTATAATCTTATAAATGATTTAAATCGAAATCTTTTTCATTTTTGGTTAAAATCGAT
1 AAATGGTTTTATAATCTTATAAATGATTTAAATCAAAATCTTTTTCATTTTTGGTTTAAA-CTAT
* * * * * *
12138608 CATAATTGGATGTTTGCATCGGGAAACGTGAAGTGAATGCCATCAATTGACAAAAAAAGTTCATT
65 CATAATTGGATGTTTGCATCAGGAAACTTGAAGTAAATGCCATCCATTGACAAGAAAAGTCCATT
* * * * *
12138673 GATAGTCACTTATGCCATCGAAAGTC-TAGTTACTCGCTTTAAATGGTTTTATAATCTTATCAAT
130 TATAGTCA-TTATGCCTTCAAAAGTCTTA-TTACTTGCTTTAAATGGTTTTATAATCTTATAAAT
* * * *
12138737 GATTTTAAATCA-AAATCTTTTTTTGGGTTTTGATTCAAACCCATCATAATTGGATGTTTCCATT
193 GATTTTAAATCAGAAATCTTTTTAT---TTTTG--TCAAAACAATCATAATTGGATGTTTGCATT
* * * *
12138801 GGGAAACATAAAGCGGATG----CTATTGATAAGAAAGTCCATTTATAGTCACTCATGCGTTC-T
253 GAGAAACTTGAAGCGGATGCCATCTATTGATAAGAAAGTCCATTTATAGTCACTCATGCCTTCAT
* * * **
12138861 AAAGCTTTGTTAC-TCCTTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAAATTTTT
318 -AAGCCTTGTTACTTAC-TTTAAATAGTTTTATAATCTTACAAACAATTTTAAATCAAAATTTTT
* * * *
12138925 TTTTTAGTTAAAATAGATCATATTTGGATGTTTGCATCGGGAAACATGAAGCAGATGCCATCTAT
381 TTTTTAGTTAAAATA-ATCATAATTGAATGTTTGCATCGGGAAACATGAAGCAGATGCAATCCAT
* * * * * *
12138990 TGACAAAAAAGGCTATTTCTAGTCACTCATGCATTAAAACCCTTGTTACTCACTTTAAATGGTTT
445 TGACAAAAAAGGCCATTTATAGTCACCCATGCATTAAAACCATTATTACTCACTTTAAATGATTT
* *
12139055 TATAATTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGATAAAACAAGTCATAATTAG
510 TATAATTCATAAAGGATTTTAAATCAAAATCTTTTTCATTTTTGGATAAAACAAGTCATAATTAG
* * * * *
12139120 ATGTTTGCCTCAAAAAGCATGCAGCGGAAGCCATCCATTTACAAGAAAAATCAATTTATAGTCGA
575 ATGTTTGCATCAAAAAG-ATGAAACGGAAGCCATCCATTGACAAGAAAAATCAATTTATAGTCAA
* * * * * * *
12139185 TCATGGCTTTAAAAGCCTTGTTACTCTCTGTAAATAGTTTTATAATCTTATAAATTATTTTACAC
639 TCATGCCTTCAAAAGCATTGTTACTCTCTGTAAATAGTTTTACAATCTTACAAATGATTTTAAAC
* * * * * * *
12139250 TAAAATATTTGCTTTGTTGCTTCAAAACCTATCATAGTTGGATGTTTTCATTGGTAATCATGAAG
704 TAAAATATTTGCTTTGTTGCTTCAAAACCAATAATAATTGGATGTTTGCATCGGGAAACATGAAG
* * ** *
12139315 AGGATGCCATCCATTGACACGAAAAGTCCATTTATAGTCACTCAGGCCTTCGAAAGCCTTGTTAC
769 AGGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAAGGCCTTCGAAAGCCTAATGAC
* *
12139380 TCATTTT
834 TCACTTA
* ** * *
12139387 AAATGGTTTTATAATCATATAAACAATTTTATATCAAAATCCTTTTCATTTTTGGTTTAAACCTA
1 AAATGGTTTTATAATCTTATAAATGA-TTTAAATCAAAATCTTTTTCATTTTTGGTTTAAA-CTA
* ** *
12139452 TCATAATTGGATGTTTGCATTC-GAAAACTTGAAGTTTATGCCATCCATTAACAAGAAAAGTCCA
64 TCATAATTGGATGTTTGCA-TCAGGAAACTTGAAGTAAATGCCATCCATTGACAAGAAAAGTCCA
* *
12139516 TTTATAGTCATTCATGCCTTCAAAAGTCTTATTCCTTGCTTTAAATGTTTTTATAATCTTATAAA
128 TTTATAGTCATT-ATGCCTTCAAAAGTCTTATTACTTGCTTTAAATGGTTTTATAATCTTATAAA
* * * *
12139581 TGATTTTGAA-CAGAAATCGTTTTCATCTTTTGTCAAAACAAATGATATTTGGATGTTTGCATTG
192 TGATTTTAAATCAGAAATC-TTTTTAT-TTTTGTCAAAAC-AATCATAATTGGATGTTTGCATTG
** *
12139645 AGAAACTTGAAGCAAATGCCATCTATTGATAAGAATAGTCCATTTATAGTCACTCATGCCATCAT
254 AGAAACTTGAAGCGGATGCCATCTATTGATAAGAA-AGTCCATTTATAGTCACTCATGCCTTCAT
* * * * **
12139710 AAGCCTTGTTACTTGCTTTAAATGGTTTTATAATGTTCCAAACAATTTTAAATTGAAATTTTTTT
318 AAGCCTTGTTACTTACTTTAAATAGTTTTATAATCTTACAAACAATTTTAAATCAAAATTTTTTT
* ** **
12139775 TTT-GTTCAAACT-ATCATAATTGAATGTTTACGC-T-GGTG-AATGTGAAGTGGATGCAATCCA
383 TTTAGTT-AAAATAATCATAATTGAATGTTT--GCATCGG-GAAACATGAAGCAGATGCAATCCA
* * * *
12139835 TTGATAAGAAAAGGCCATTTATAGTTACCCATGC-TCTAGAAAGCATTATTACTCGCTTTAAATG
444 TTGACAA-AAAAGGCCATTTATAGTCACCCATGCAT-TA-AAACCATTATTACTCACTTTAAATG
* * *
12139899 ATTTTATAA-TCATACCAAGGATTTTAAATCGAAATGGTTTTT-ATTTTTGGTTAAAATCAA-TC
506 ATTTTATAATTCATA--AAGGATTTTAAATCAAAAT-CTTTTTCATTTTTGGATAAAA-CAAGTC
* * * **
12139961 ATAATTGGATGTTTGCAT-AAGCAAATG-TGAAACGGATGCCATCCATTGACAAGAAAAGTCTGT
567 ATAATTAGATGTTTGCATCAA--AAA-GATGAAACGGAAGCCATCCATTGACAAGAAAAATCAAT
* * * * * *
12140024 TTATAGT-AACTTATGCCTTCGAAAGCATTGTTACT-TGCTTTAAATGGTTTTACAA-CTTGCAT
629 TTATAGTCAA-TCATGCCTTCAAAAGCATTGTTACTCT-CTGTAAATAGTTTTACAATCTTACAA
* * * *
12140086 ATGATTTTAAA-TCAAAATATTTTTCATTT-TTGGTT-AATATCAATAATAATTGGATGTTTGCA
692 ATGATTTTAAACT-AAAATA-TTTGC-TTTGTTGCTTCAAAACCAATAATAATTGGATGTTTGCA
* * * *
12140148 TCGGGAAACGTGAAGTGGAT-TCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATG-CTA
754 TCGGGAAACATGAAGAGGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAAGGCCT-
12140211 GT-GAAAGCCTAATGACAT-ACTTA
818 -TCGAAAGCCTAATGAC-TCACTTA
* *
12140234 AAATGGTTTTATAATCTTATAAATGATTTCAAACCAAAATCTTTTTCATTTTTGG-TTAAAATAG
1 AAATGGTTTTATAATCTTATAAATGATTT-AAATCAAAATCTTTTTCATTTTTGGTTTAAACTA-
** * * * *
12140298 GTTGTAATTGGATGTTTGCATCAGGAAACTTGAAGCAGAA-ACCATCCATGGATAAGAAAAGTCC
64 -TCATAATTGGATGTTTGCATCAGGAAACTTGAAGTA-AATGCCATCCATTGACAAGAAAAGTCC
* * ** *
12140362 ATTTATAGTCACTAATGCAATT-AAAAACCTTACTACTTGCTTTAAATGGTTTTATAATCTTATA
127 ATTTATAGTCA-TTATGC-CTTCAAAAGTCTTATTACTTGCTTTAAATGGTTTTATAATCTTATA
* * * *
12140426 AATGACTTTAAATC-GAAGTCTTTTTTATTTTTGGTTAAAATCAATCATAATTGGATGTGTGCA-
190 AATGATTTTAAATCAGAAATC-TTTTTATTTTT-GTCAAAA-CAATCATAATTGGATGTTTGCAT
* * * * *
12140489 TCAGGAAATTTGAAGTGGATGCCATCCATTGACAAGAAAAG-CCTATTTATAGTCACTCATGCCT
252 TGA-GAAACTTGAAGCGGATGCCATCTATTGATAAG-AAAGTCC-ATTTATAGTCACTCATGCCT
* * ** ** **
12140553 TCAAAAGCCTTATTA-TTCACTTTAAATTA-TTTTATAATCTTATTAATGATTGCAAATCAAAAT
314 TCATAAGCCTTGTTACTT-ACTTTAAA-TAGTTTTATAATCTTACAAACAATTTTAAATCAAAAT
* * **
12140616 AGTTTTTGATTTT-GCTTAAAATAGATCATATTTGGAA-GTTTACATTAGGAAACATGAAGCAGA
377 --TTTTT--TTTTAG-TTAAAATA-ATCATAATT-GAATGTTTGCATCGGGAAACATGAAGCAGA
* * * *
12140679 TGCCATCCATTAACAGGAAAAGTCCATTTATAGT
435 TGCAATCCATTGACA-AAAAAGGCCATTTATAGT
12140713 ATAATACCCC
Statistics
Matches: 1075, Mismatches: 188, Indels: 117
0.78 0.14 0.08
Matches are distributed among these distances:
842 6 0.01
843 33 0.03
844 31 0.03
845 153 0.14
846 71 0.07
847 378 0.35
848 185 0.17
849 136 0.13
850 14 0.01
851 11 0.01
852 4 0.00
853 50 0.05
854 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (840 bp):
AAATGGTTTTATAATCTTATAAATGATTTAAATCAAAATCTTTTTCATTTTTGGTTTAAACTATC
ATAATTGGATGTTTGCATCAGGAAACTTGAAGTAAATGCCATCCATTGACAAGAAAAGTCCATTT
ATAGTCATTATGCCTTCAAAAGTCTTATTACTTGCTTTAAATGGTTTTATAATCTTATAAATGAT
TTTAAATCAGAAATCTTTTTATTTTTGTCAAAACAATCATAATTGGATGTTTGCATTGAGAAACT
TGAAGCGGATGCCATCTATTGATAAGAAAGTCCATTTATAGTCACTCATGCCTTCATAAGCCTTG
TTACTTACTTTAAATAGTTTTATAATCTTACAAACAATTTTAAATCAAAATTTTTTTTTTAGTTA
AAATAATCATAATTGAATGTTTGCATCGGGAAACATGAAGCAGATGCAATCCATTGACAAAAAAG
GCCATTTATAGTCACCCATGCATTAAAACCATTATTACTCACTTTAAATGATTTTATAATTCATA
AAGGATTTTAAATCAAAATCTTTTTCATTTTTGGATAAAACAAGTCATAATTAGATGTTTGCATC
AAAAAGATGAAACGGAAGCCATCCATTGACAAGAAAAATCAATTTATAGTCAATCATGCCTTCAA
AAGCATTGTTACTCTCTGTAAATAGTTTTACAATCTTACAAATGATTTTAAACTAAAATATTTGC
TTTGTTGCTTCAAAACCAATAATAATTGGATGTTTGCATCGGGAAACATGAAGAGGATGCCATCC
ATTGACAAGAAAAGTCCATTTATAGTCACTAAGGCCTTCGAAAGCCTAATGACTCACTTA
Found at i:12142023 original size:35 final size:35
Alignment explanation
Indices: 12141993--12142065 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
12141983 AGAGTGTTTT
* *
12141993 TGATGATATTGAAATGTGCATGTAGGGAGTGCACA
1 TGATGATATTGAAATATGCATGAAGGGAGTGCACA
*
12142028 TGATGATATTGAAATATGCGTGAAGGGAGTGCACA
1 TGATGATATTGAAATATGCATGAAGGGAGTGCACA
12142063 TGA
1 TGA
12142066 GCTGAGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (35 bp):
TGATGATATTGAAATATGCATGAAGGGAGTGCACA
Found at i:12142101 original size:2 final size:2
Alignment explanation
Indices: 12142094--12142126 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12142084 GGTGTACATG
12142094 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12142127 GCTATAGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12146603 original size:28 final size:29
Alignment explanation
Indices: 12146548--12146611 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
12146538 AAGACAAAAA
* *
12146548 AAATAT-TTTATCTTGTCTAAATTGAGAC
1 AAATATGTTTATCTTGTCTAAAGTAAGAC
*
12146576 AAATATGTTT-TCTTGTCTAAGGTAAGAC
1 AAATATGTTTATCTTGTCTAAAGTAAGAC
*
12146604 AAAAATGT
1 AAATATGT
12146612 CAAAGCCGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 28 0.90
29 3 0.10
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (29 bp):
AAATATGTTTATCTTGTCTAAAGTAAGAC
Found at i:12151026 original size:54 final size:54
Alignment explanation
Indices: 12150939--12151096 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
12150929 ATTAGTATAC
* * * * *
12150939 CACCACATCTCATCTAGCTCATGCGCATTCCCCCACATTGTGCACATAGCCAGA
1 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGA
***
12150993 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAGTTGGA
1 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGA
* *
12151047 CATCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCATGCACATAGC
1 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAGC
12151097 TGGAGTCATC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.24, C:0.41, G:0.13, T:0.22
Consensus pattern (54 bp):
CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGA
Found at i:12151075 original size:25 final size:25
Alignment explanation
Indices: 12150996--12151077 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 25
12150986 AGCCAGACAC
12150996 CCCATCTCACCTAGCTCATGTGCAT
1 CCCATCTCACCTAGCTCATGTGCAT
** * * *
12151021 CCCCCCACATCGT-GCACATAGTTGGACAT
1 CCCATCTCA-CCTAGCTCAT-G-T-G-CAT
12151050 CCCATCTCACCTAGCTCATGTGCAT
1 CCCATCTCACCTAGCTCATGTGCAT
12151075 CCC
1 CCC
12151078 CCCACATCAT
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
25 17 0.41
26 4 0.10
27 2 0.05
28 4 0.10
29 14 0.34
ACGTcount: A:0.21, C:0.41, G:0.13, T:0.24
Consensus pattern (25 bp):
CCCATCTCACCTAGCTCATGTGCAT
Found at i:12151154 original size:38 final size:38
Alignment explanation
Indices: 12151072--12151170 Score: 110
Period size: 38 Copynumber: 2.6 Consensus size: 38
12151062 AGCTCATGTG
** * *
12151072 CATCCCCCCACATCATGCACATAGCTGGAGTCATCGTGTG
1 CATCCCCCCACATCATGCAC--AGCTCAAGCCATCGTGTA
12151112 CATCCCCCCACATCATGCACAG-TCAATGCCATCGTGTA
1 CATCCCCCCACATCATGCACAGCTCAA-GCCATCGTGTA
* *
12151150 CATCCCTCCACATCCTGCACA
1 CATCCCCCCACATCATGCACA
12151171 CGGGTAGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.04
38 30 0.58
40 20 0.38
ACGTcount: A:0.24, C:0.40, G:0.14, T:0.21
Consensus pattern (38 bp):
CATCCCCCCACATCATGCACAGCTCAAGCCATCGTGTA
Found at i:12167056 original size:20 final size:21
Alignment explanation
Indices: 12167015--12167059 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
12167005 CCTAGGTGGA
*
12167015 AAAATTCAAAGGAAAAGTGTG
1 AAAATTCAAAGGAAAAGAGTG
12167036 AAAATTC-AAGGAAACA-AGTG
1 AAAATTCAAAGGAAA-AGAGTG
12167056 AAAA
1 AAAA
12167060 AAGCTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.58, C:0.07, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAATTCAAAGGAAAAGAGTG
Found at i:12167060 original size:21 final size:20
Alignment explanation
Indices: 12167013--12167060 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
12167003 ACCCTAGGTG
12167013 GAAAAATTCAAAGGAAAAGT
1 GAAAAATTCAAAGGAAAAGT
*
12167033 GTGAAAATTC-AAGGAAACAAGT
1 G-AAAAATTCAAAGG-AA-AAGT
12167055 GAAAAA
1 GAAAAA
12167061 AGCTAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAAGGAAAAGT
Found at i:12170635 original size:171 final size:170
Alignment explanation
Indices: 12170340--12173613 Score: 1471
Period size: 171 Copynumber: 19.2 Consensus size: 170
12170330 ATTATTAATA
* * ** * * * * *
12170340 ACTATAAATGAAATTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCACGATGTGATA-ATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTCAATG-CAAACAT-A
* * ** *
12170404 AAA-TATGATCT-ATTTTA-ACCACAAATGAAAA-ACATTTCGATTTGAAATCATTTATAAGATT
64 AAATTATGAT-TAATTTTATA--AAAAATGAAAACA-ATTTCAACGTAAAATCATTTATAAGATT
* * **
12170465 ATATAACCATTTAAAGTGAGTAACTAGGCTTTCGATAATATGAGTG
125 ATAAAACCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
** * *
12170511 ACTATAAATGGACTTTTCTTAACAATGAATGGCATCCGCTTCATGTTTC-CTAGTGCAAACATAA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTC-AATGCAAACATAA
* *
12170575 AATTATGATTAATTTTCA-AAAGAAATGAAAA-AGATTTCAACGTAAAATCCTTTTTAAGATTAT
65 AATTATGATTAATTTT-ATAAA-AAATGAAAACA-ATTTCAACGTAAAATCATTTATAAGATTAT
* * *
12170638 AAAATCATTTAAAGCGAGTAACAAGGCTTTCGA-AGGCATAAGTG
127 AAAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
* * * * * **
12170682 ACTATAAATGGACTTTTCTCGTCAATGGTTAGCATCCACTTCATGTTTCTCAATGTAAACATCTA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTCAATGCAAACATAAA
* * ** ** *
12170747 ATTATGATTGATTTTATTCAAAAATGAAAACAATTTTGATTTAAAATCGTTTATAAGATTATAAA
66 ATTATGATTAATTTTA-TAAAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTATAAA
*
12170812 ACCATTTAAAGTGAGTAACAAGGCTTTTGATAGCATGAGTG
130 ACCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
* * * * * **
12170853 ACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTCGCTTCATGTTT-TCTGATGTAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTC-AATGCAAACATAA
* * * * * * *
12170917 AGTTATGATCT-ATTTTA-ACCAGAAACA-AAAAAGATTTTGAA-TTAAAATCATTTATATGATT
65 AATTATGAT-TAATTTTATA--A-AAA-ATGAAAACAATTTCAACGTAAAATCATTTATAAGATT
** * * * * * ** *
12170978 ATAAAACC-TTTAAAGCAATTCACTAGGATTTTTCGATGGCAAAAGTA
125 ATAAAACCATTTAAAGTGAGTAACAAGG--CTTTCGATAGCATGAGTG
* * * * *
12171025 ACTATAAATGGACTTTTCTTGTCAATGGATCGCATCTGTTTTC-TATTTCTTAATGCAAACA-AT
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCG-CTTCATGTTTCTCAATGCAAACATA-
* ** * * * * ** * *
12171088 CAATTATGACCAATCTTAATAAATAATGAAAAAAATTTTAATTTAAAATCATTTACAAAATTATA
64 AAATTATGATTAAT-TTTATAAAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTATA
* ** * *
12171153 AAACCATTTAAGGCAAATAACAAGACTTTCGA-AGGCATGAGTG
128 AAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
* * * * * * ** *
12171196 ACTATAAATGGACTTTTTTTGACACA--AATGTCAT-TGCCTTTATGTTT-TCCAAACCAAACCT
1 ACTATAAATGGACTTTTCTTGTCA-ATGGATGGCATCCG-CTTCATGTTTCT-CAATGCAAACAT
** * * * ** ** * * * * * **
12171257 CTAGTTATGA-TAGGTTTCACCAAAAACAAAAAGATTTTC-ACTTAAAATTATTTATAGGACCAT
63 AAAATTATGATTA-ATTTTATAAAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTAT
* * *
12171320 AAAACCAATTAAAGTGAATAATAAGGCTTTCGA-AGGCATGAGTG
127 AAAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
* * * * * **
12171364 TCTATAAATGGACTTTTCTTGTCAATGGATGGCATCTGTTTCATATTTC-CTAATGTAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTC-AATGCAAACATAA
** * * *
12171428 AATTATGAACAATTTTAACAAAAAATGAAAA-AGATTTTGAA-TTAAAATCATTTATAAGATTAT
65 AATTATGATTAATTTT-ATAAAAAATGAAAACA-A-TTTCAACGTAAAATCATTTATAAGATTAT
* * *
12171491 AAAACCATTCAAAGCGAGTAATAAGGCTTTCGA-ATGCATGAGTG
127 AAAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
* * * * * *
12171535 ACTGTAAATGGGCTTTTCTTGTCAATGGATGGCTTCTAG-TTCATGTTTCCTCGATGCAAACATC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATC-CGCTTCATGTTT-CTCAATGCAAACATA
* * *** * *
12171599 CAATTATGATCT-ATTTTA-ACTAAAAAT-AAAAAAGATTTCATTTTAAAATCATTTAT-ATATG
64 AAATTATGAT-TAATTTTATA--AAAAATGAAAACA-ATTTCAACGTAAAATCATTTATAAGATT
* * * * * * * * **
12171660 ATAAAATCATGTAAAGCGAGTAATAAGGGTTTCAATGGCATAAGCA
125 ATAAAACCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
** * * ** * **
12171706 ACTATAAATGGACTTTTCTTGTCAATGGATGGTTTTCACTTCACATTTCCCAATGCAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTCAATGCAAACATAAA
* * ** *
12171771 ATTATGA-T-ATGTTTGA-AACAAGAATGGAAAA-GATTTTAATTTAATATCATTTATAA-ATTA
66 ATTATGATTAAT-TTT-ATAA-AA-AAT-GAAAACAATTTCAACGTAAAATCATTTATAAGATTA
* * ** *
12171831 TAAAATCCATTTAAAGCGAGTAACTAGGGATTCGAT-GGATGAGTG
126 TAAAA-CCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
* * ** * *
12171876 ATTATAAAT-GAGCTTTTCTTGTCAATGGATAGCATTTGCTTCACT-TTTCCCAATGCAAACATC
1 ACTATAAATGGA-CTTTTCTTGTCAATGGATGGCATCCGCTTCA-TGTTTCTCAATGCAAACATA
* * ** * * *
12171939 CAA-TATGATCT-GTTTTA-ACAAAAAACAAAACGATTTCAACTTAAAATCATTTATAGGATTAT
64 AAATTATGAT-TAATTTTATA-AAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTAT
* * *
12172001 AAAACCAGTTAAAACT-AGTAACAAGGGTTTCGA-AGGCATGAGTG
127 AAAACCA-TTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
** * * * ** * * *
12172045 ACTATAAATGGACTTTTCACGTCAATGAATGTCATCTGCTTCACATTTCCCAATG-AAAAATAGA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTCAATGCAAACATAAA
** ** * ** ** ** * *
12172109 ATTATGA-TGGTTTTGA-ACCGAAA-CAAAAGTGATTTTGATTTAAGATCATTTATAAGATTATC
66 ATTATGATTAATTTT-ATA-AAAAATGAAAA-CAATTTCAACGTAAAATCATTTATAAGATTATA
* * * * *
12172171 TAACAATTTAAAGTGAGTAACTAGGCTTTCGATGGCATAAGTG
128 AAACCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
* * * * ** * * *
12172214 ACCATAAAAGGACTTTTCCTATCAATGGAT-GCTATTTGCTTCACGTTTCTCGAA-GCAAATATC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGC-ATCCGCTTCATGTTTCTC-AATGCAAACATA
* * * ** * * * *
12172277 CAATTATGATAAATTTTA-ACCAAAAATGAAAA-ACATTCCAATTTTAAACCATATATGAGATTA
64 AAATTATGATTAATTTTATA--AAAAATGAAAACA-ATTTCAACGTAAAATCATTTATAAGATTA
* ** * * * *
12172340 TAAAACTATTTAAAGCAAGCAGCAAGGCTTTCGAAAGCATGAGTA
126 TAAAACCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
* * * * * * **
12172385 ACTACAAACGGACTTTTCTTGTCAATGGATGGCATCCGTTTGATGTTTAC-CACTGTAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTT-CTCAATGCAAACATAA
* ** ** * * *
12172449 AATTATGATTGATTTTA-ACCAAAAATGAAAATGATTTCAATTTCAAATCCTTTATCAGATTATA
65 AATTATGATTAATTTTATA--AAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTATA
* * * ** ** *
12172513 AAAACATTTAAAGCGAGTAATAATACTTTCGAGGGCAAGAGTG
128 AAACCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
* * * * * ** ** * *
12172556 ACTATAAATGGACTTTTATTATAAATGGATAGCTTTTGCTTCATGTTTCTTGATGCAAAAATCAA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTCAATGCAAACATAAA
* * * ** * ** * *
12172621 ATTATAATCT--GTTCA-AACCAAAAACAAAAAATATTTTGA-TTGAAAATCATTTATAA-ATAA
66 ATTATGAT-TAATTTTATAA--AAAATGAAAACA-ATTTCAACGT-AAAATCATTTATAAGATTA
* * * * * *
12172681 CAAAGCTATTTAAAGCGAGTAACAAGGCTTTTGA-AGGCTTGAGTG
126 TAAAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
* * * * * * * * *
12172726 ACTTTAAATAGACTTTTCTTGTCCATGGATGTCATTCGCTTTATGTTAC-CAGTTGCAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTCA-ATGCAAACAT-A
* * ***** * * * *
12172790 AAA-TAT-AATATGTTTTA-ACCAAAAATGAAAA-AGATTTTGTTTTGAAGTCATTTACAACATT
64 AAATTATGATTA-ATTTTATA--AAAAATGAAAACA-ATTTCAACGTAAAATCATTTATAAGATT
* * * * * * *
12172851 ATAAAAGCTTTTTAAGCGAGTCACTAGGCTTTCGATGGCATGAGTG
125 ATAAAACCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
* * * * * * * **
12172897 ACTATAAATTGACTTTTCTTGTGAATGGATGACATTCACTTCACGTTTCTTGAA-GCAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTC-TCAATGCAAACATAA
* * * * * *
12172961 AATTATCATTGATTTTAATAAAAAATGAAAAAAAGTTTGATC-TAAAATCATTTACAAGATTATA
65 AATTATGATTAATTTT-ATAAAAAATGAAAACAA-TTTCAACGTAAAATCATTTATAAGATTATA
* **
12173025 AAACTATTTAAAGAAAGTAACAAGGCTTTCGA-AGGCATGAGTG
128 AAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
* * ** * * **
12173068 ACTATAAATGGACTTTTCTTGTCTATGGATGGCTTCTACTTCACGTTTC-CTGATGCAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTC-AATGCAAACATAA
* * ** * * ** ** *
12173132 CATTATGCTTTGTTTTA-ACCAAAAATAAAAAAAATTTTGATTTGAAATCATTTATAAGATTATA
65 AATTATGATTAATTTTATA--AAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTATA
** ** *
12173196 AAAGTATTTAAAGCAAGTAACAAGGCTTTCGA-ACACATGA-TG
128 AAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
* * * * ***
12173238 ACTATAAATGGACTTTTCTTGTCAATGCATGGCTTTCGCTTCATGTTTC-CTAATTCAAACAGCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTC-AATGCAAACATAA
* * ** * ** ** ** * *
12173302 AATTACG-CT-ATGCTATAACCAAAAAAGAAAAGGATTTTGATATGAAATAATTTATAAGATTAT
65 AATTATGATTAATTTTAT-A--AAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTAT
* * * *
12173365 AAAACTATTTAAAGTGAGTAACAAGGCTTTTGA-AGAAATAAGTG
127 AAAACCATTTAAAGTGAGTAACAAGGCTTTCGATAG-CATGAGTG
* * * * * **
12173409 TCTATAAATGGACTTTTCTTATCAATGGATGGCATCCACTTAATGTTTCAT-GATGCAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTC-TCAATGCAAACATAA
* ** * *
12173473 AATTATGATTGATTTTA-ACCAAAAATGAAAA-AGATTTCAATTTAAAAGCATTTATAAGATTAG
65 AATTATGATTAATTTTATA--AAAAATGAAAACA-ATTTCAACGTAAAATCATTTATAAGATTAT
* ** * * * *
12173536 AAAACCGTTTAAAGAAAGTAGCAAGGCTTTTGA-ATGCATTAATG
127 AAAACCATTTAAAGTGAGTAACAAGGCTTTCGATA-GCATGAGTG
12173580 ACTATAAATGGACTATTT-TTGTCAAT-GATGGCAT
1 ACTATAAATGGACT-TTTCTTGTCAATGGATGGCAT
12173614 TCTCTTTACG
Statistics
Matches: 2421, Mismatches: 548, Indels: 269
0.75 0.17 0.08
Matches are distributed among these distances:
167 6 0.00
168 151 0.06
169 241 0.10
170 472 0.19
171 1331 0.55
172 189 0.08
173 30 0.01
174 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (170 bp):
ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCTCAATGCAAACATAAA
ATTATGATTAATTTTATAAAAAATGAAAACAATTTCAACGTAAAATCATTTATAAGATTATAAAA
CCATTTAAAGTGAGTAACAAGGCTTTCGATAGCATGAGTG
Found at i:12170965 original size:342 final size:338
Alignment explanation
Indices: 12170340--12173669 Score: 2615
Period size: 342 Copynumber: 9.8 Consensus size: 338
12170330 ATTATTAATA
* * * * * *
12170340 ACTATAAATGAAATTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCACGATGTGATA-ATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTTC-CAATG-CAAACATCC
* * * *
12170404 AAATATGATCT-ATTTTAACCACAAATGAAAAACATTTCGATTTGAAATCATTTATAAGATTATA
64 AATTATGAT-TGATTTTAACCAAAAATGAAAAA-ATTTTGATTTAAAATCATTTATAAGATTATA
* * * ** **
12170468 TAACCATTTAAAGTGAGTAACTAGGCTTTCGATAATATGAGTGACTATAAATGGACTTTTCTTAA
127 AAACCATTTAAAGCGAGTAACAAGGCTTTCGATAGCATGAGTGACTATAAATGGACTTTTCTTGT
* * * * **
12170533 CAATGAATGGCATCCGCTTCATGTTTCCT-AGTGCAAACATAAAATTATGAT-TAATTTTCAA--
192 CAATGGATGGCTTTCGCTTCATGTTTTCTGA-TGCAAACATCCAATTATGATCT-ATTTT-AACC
** * * *
12170594 AAGAAATGAAAAAGATTTCAACGTAAAATCCTTTTTAAGATTATAAAATCATTTAAAGCGAGTAA
254 AA-AAACAAAAAAGATTTCAA-TTAAAATCATTTATAAGATTATAAAA-CATTTAAAGCGAGTAA
*
12170659 CAAGGCTTTCGAAGGCATAAGTG
316 CAAGGCTTTCGAAGGCATGAGTG
* * * * *
12170682 ACTATAAATGGACTTTTCTCGTCAATGGTTAGCATCCACTTCATGTTTCTCAATGTAAACATCTA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTTC-CAATGCAAACATCCA
** *
12170747 ATTATGATTGATTTTATTCAAAAATGAAAACAATTTTGATTTAAAATCGTTTATAAGATTATAAA
65 ATTATGATTGATTTTAACCAAAAATGAAAA-AATTTTGATTTAAAATCATTTATAAGATTATAAA
* * *
12170812 ACCATTTAAAGTGAGTAACAAGGCTTTTGATAGCATGAGTGACTATAAATGGACTTTTTTTGTCA
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGATAGCATGAGTGACTATAAATGGACTTTTCTTGTCA
* * *
12170877 ATGGATGGCTTTCGCTTCATGTTTTCTGATGTAAACATCCAGTTATGATCTATTTTAACCAGAAA
194 ATGGATGGCTTTCGCTTCATGTTTTCTGATGCAAACATCCAATTATGATCTATTTTAACCAAAAA
* * * * * * *
12170942 CAAAAAAGATTTTGAATTAAAATCATTTATATGATTATAAAACCTTTAAAGCAATTCACTAGGAT
259 CAAAAAAGA-TTTCAATTAAAATCATTTATAAGATTATAAAACATTTAAAGCGAGTAACAAGG--
* * ** *
12171007 TTTTCGATGGCAAAAGTA
321 CTTTCGAAGGCATGAGTG
* *** * *
12171025 ACTATAAATGGACTTTTCTTGTCAATGGATCGCATCTGTTTTC-TATTTCTTAATGCAAACAAT-
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATC-CACTTCATGTTTC-CAATGCAAAC-ATC
*** * * * * *
12171088 CAATTATGACCAATCTTAA-TAAATAATGAAAAAAATTTTAATTTAAAATCATTTACAAAATTAT
63 CAATTATGATTGATTTTAACCAAA-AATG-AAAAAATTTTGATTTAAAATCATTTATAAGATTAT
* * * * *
12171152 AAAACCATTTAAGGCAAATAACAAGACTTTCGA-AGGCATGAGTGACTATAAATGGACTTTTTTT
126 AAAACCATTTAAAGCGAGTAACAAGGCTTTCGATA-GCATGAGTGACTATAAATGGACTTTTCTT
* * * * * ** ** * * * * *
12171216 GACACA--AATGTCATT-GCCTTTATGTTTTCCAAACCAAACCTCTAGTTATGA--TAGGTTTCA
190 GTCA-ATGGATGGCTTTCG-CTTCATGTTTTCTGATGCAAACATCCAATTATGATCTA-TTTTAA
* * * ** * * *
12171276 CCAAAAAC-AAAAAGATTTTCACTTAAAATTATTTATAGGACCATAAAACCAATTAAAGTGAATA
252 CCAAAAACAAAAAAGA-TTTCAATTAAAATCATTTATAAGATTATAAAA-CATTTAAAGCGAGTA
*
12171340 ATAAGGCTTTCGAAGGCATGAGTG
315 ACAAGGCTTTCGAAGGCATGAGTG
* *** * *
12171364 TCTATAAATGGACTTTTCTTGTCAATGGATGGCATCTGTTTCATATTTCCTAATGTAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTTCC-AATGCAAACATCCA
*** * *
12171429 ATTATGAACAATTTTAACAAAAAATGAAAAAGATTTTGAATTAAAATCATTTATAAGATTATAAA
65 ATTATGATTGATTTTAACCAAAAATGAAAAA-ATTTTGATTTAAAATCATTTATAAGATTATAAA
* * * *
12171494 ACCATTCAAAGCGAGTAATAAGGCTTTCGA-ATGCATGAGTGACTGTAAATGGGCTTTTCTTGTC
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGATA-GCATGAGTGACTATAAATGGACTTTTCTTGTC
* * *
12171558 AATGGATGGCTTCTAG-TTCATGTTTCCTCGATGCAAACATCCAATTATGATCTATTTTAACTAA
193 AATGGATGGCTT-TCGCTTCATGTTTTCT-GATGCAAACATCCAATTATGATCTATTTTAACCAA
* * * * * *
12171622 AAATAAAAAAGATTTCATTTTAAAATCATTTAT-ATATGATAAAATCATGTAAAGCGAGTAATAA
256 AAACAAAAAAGATTTCA-ATTAAAATCATTTATAAGATTATAAAA-CATTTAAAGCGAGTAACAA
* * **
12171686 GGGTTTC-AATGGCATAAGCA
319 GGCTTTCGAA-GGCATGAGTG
** * **
12171706 ACTATAAATGGACTTTTCTTGTCAATGGATGGTTTTCACTTCACATTTCCCAATGCAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTT-CCAATGCAAACATCCA
* * * * * *
12171771 ATTATGATATG-TTTGAAACAAGAATGGAAAAGATTTTAATTTAATATCATTTATAA-ATTATAA
65 ATTATGAT-TGATTTTAACCAAAAAT-GAAAAAATTTTGATTTAAAATCATTTATAAGATTATAA
* ** * *
12171834 AATCCATTTAAAGCGAGTAACTAGGGATTCGAT-GGATGAGTGATTATAAAT-GAGCTTTTCTTG
128 AA-CCATTTAAAGCGAGTAACAAGGCTTTCGATAGCATGAGTGACTATAAATGGA-CTTTTCTTG
* * ** * *
12171897 TCAATGGATAGCATTT-GCTTCACT-TTTCCCAATGCAAACATCCAA-TATGATCTGTTTTAACA
191 TCAATGGATGGC-TTTCGCTTCA-TGTTTTCTGATGCAAACATCCAATTATGATCTATTTTAACC
* * * * *
12171959 AAAAAC-AAAACGATTTCAACTTAAAATCATTTATAGGATTATAAAACCAGTTAAAACTAGTAAC
254 AAAAACAAAAAAGATTTCAA-TTAAAATCATTTATAAGATTATAAAA-CATTTAAAGCGAGTAAC
*
12172023 AAGGGTTTCGAAGGCATGAGTG
317 AAGGCTTTCGAAGGCATGAGTG
** * * ** ** * **
12172045 ACTATAAATGGACTTTTCACGTCAATGAATGTCATCTGCTTCACATTTCCCAATG-AAAAATAGA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTT-CCAATGCAAACATCCA
* *** * *
12172109 ATTATGA-TGGTTTTGAACCGAAACAA--AAGTGATTTTGATTTAAGATCATTTATAAGATTATC
65 ATTATGATTGATTTT-AACC-AAA-AATGAAAAAATTTTGATTTAAAATCATTTATAAGATTATA
* * * * * * * * * *
12172171 TAACAATTTAAAGTGAGTAACTAGGCTTTCGATGGCATAAGTGACCATAAAAGGACTTTTCCTAT
127 AAACCATTTAAAGCGAGTAACAAGGCTTTCGATAGCATGAGTGACTATAAATGGACTTTTCTTGT
* * * * **
12172236 CAATGGAT-GCTATTTGCTTCACG-TTTCTCGAAGCAAATATCCAATTATGATAAATTTTAACCA
192 CAATGGATGGCT-TTCGCTTCATGTTTTCT-GATGCAAACATCCAATTATGATCTATTTTAACCA
** * * * * * * * * *
12172299 AAAATGAAAAACATTCCAATTTTAAACCATATATGAGATTATAAAACTATTTAAAGCAAGCAGCA
255 AAAACAAAAAAGATTTCAA-TTAAAATCATTTATAAGATTATAAAAC-ATTTAAAGCGAGTAACA
* *
12172364 AGGCTTTCGAAAGCATGAGTA
318 AGGCTTTCGAAGGCATGAGTG
* * ** * * *
12172385 ACTACAAACGGACTTTTCTTGTCAATGGATGGCATCCGTTTGATGTTTACCACTGTAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTT-CCAATGCAAACATCCA
* ** * * *
12172450 ATTATGATTGATTTTAACCAAAAATGAAAATGATTTCAATTTCAAATCCTTTATCAGATTATAAA
65 ATTATGATTGATTTTAACCAAAAATGAAAA-AATTTTGATTTAAAATCATTTATAAGATTATAAA
* * ** ** * * * *
12172515 AACATTTAAAGCGAGTAATAATACTTTCGAGGGCAAGAGTGACTATAAATGGACTTTTATTATAA
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGATAGCATGAGTGACTATAAATGGACTTTTCTTGTCA
* * * * * * **
12172580 ATGGATAGCTTTTGCTTCATG-TTTCTTGATGCAAAAATCAAATTATAATCTGTTCAAACCAAAA
194 ATGGATGGCTTTCGCTTCATGTTTTC-TGATGCAAACATCCAATTATGATCTATTTTAACCAAAA
* ** * * *
12172644 ACAAAAAATATTTTGATTGAAAATCATTTATAA-ATAACAAAGCTATTTAAAGCGAGTAACAAGG
258 ACAAAAAAGATTTCAATT-AAAATCATTTATAAGATTATAAAAC-ATTTAAAGCGAGTAACAAGG
* *
12172708 CTTTTGAAGGCTTGAGTG
321 CTTTCGAAGGCATGAGTG
* * * * * * * * *
12172726 ACTTTAAATAGACTTTTCTTGTCCATGGATGTCATTCGCTTTATGTTACCAGTTGCAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTTCCA-ATGCAAACATCCA
* * * * * * *
12172791 AATATAATATG-TTTTAACCAAAAATGAAAAAGATTTTGTTTTGAAGTCATTTACAACATTATAA
65 ATTATGAT-TGATTTTAACCAAAAATGAAAAA-ATTTTGATTTAAAATCATTTATAAGATTATAA
* * * * * * * *
12172855 AAGCTTTTTAAGCGAGTCACTAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCTTGTG
128 AACCATTTAAAGCGAGTAACAAGGCTTTCGATAGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * * * * * **
12172920 AATGGATGACATTCACTTCACG-TTTCTTGAAGCAAACATCCAATTATCAT-TGATTTTAATAAA
193 AATGGATGGCTTTCGCTTCATGTTTTC-TGATGCAAACATCCAATTATGATCT-ATTTTAACCAA
* * * **
12172983 AAATGAAAAAA-AGTTT-GATCTAAAATCATTTACAAGATTATAAAACTATTTAAAGAAAGTAAC
256 AAA-CAAAAAAGA-TTTCAAT-TAAAATCATTTATAAGATTATAAAAC-ATTTAAAGCGAGTAAC
12173046 AAGGCTTTCGAAGGCATGAGTG
317 AAGGCTTTCGAAGGCATGAGTG
* * * * * *
12173068 ACTATAAATGGACTTTTCTTGTCTATGGATGGCTTCTACTTCACGTTTCCTGATGCAAACATCCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTTCC-AATGCAAACATCCA
* * *
12173133 ATTATGCTTTG-TTTTAACCAAAAATAAAAAAAATTTTGATTTGAAATCATTTATAAGATTATAA
65 ATTATG-ATTGATTTTAACCAAAAAT-GAAAAAATTTTGATTTAAAATCATTTATAAGATTATAA
** * *
12173197 AAGTATTTAAAGCAAGTAACAAGGCTTTCGA-ACACATGA-TGACTATAAATGGACTTTTCTTGT
128 AACCATTTAAAGCGAGTAACAAGGCTTTCGATA-GCATGAGTGACTATAAATGGACTTTTCTTGT
* * * * * * *
12173260 CAATGCATGGCTTTCGCTTCATGTTTCCTAATTCAAACAGCCAATTACG--CTATGCTATAACCA
192 CAATGGATGGCTTTCGCTTCATGTTTTCTGATGCAAACATCCAATTATGATCTAT--TTTAACCA
* ** * * *
12173323 AAAA-AGAAAAGGATTTTGATATGAAATAATTTATAAGATTATAAAACTATTTAAAGTGAGTAAC
255 AAAACA-AAAAAGATTTCAAT-TAAAATCATTTATAAGATTATAAAAC-ATTTAAAGCGAGTAAC
* ** *
12173387 AAGGCTTTTGAAGAAATAAGTG
317 AAGGCTTTCGAAGGCATGAGTG
* * *
12173409 TCTATAAATGGACTTTTCTTATCAATGGATGGCATCCACTTAATGTTT-CATGATGCAAACATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTTCCA--ATGCAAACATCC
** * *
12173473 AATTATGATTGATTTTAACCAAAAATGAAAAAGATTTCAATTTAAAAGCATTTATAAGATTAGAA
64 AATTATGATTGATTTTAACCAAAAATGAAAAA-ATTTTGATTTAAAATCATTTATAAGATTATAA
* ** * * * *
12173538 AACCGTTTAAAGAAAGTAGCAAGGCTTTTGA-ATGCATTAATGACTATAAATGGACTATTT-TTG
128 AACCATTTAAAGCGAGTAACAAGGCTTTCGATA-GCATGAGTGACTATAAATGGACT-TTTCTTG
* * * * * * * *
12173601 TCAAT-GATGGCATTCTCTTTACGTGTTTCTTGATTCAGACATCCATTTATGAT-TGATTTTATC
191 TCAATGGATGGCTTTCGCTTCATGT-TTTC-TGATGCAAACATCCAATTATGATCT-ATTTTAAC
12173664 CAAAAA
253 CAAAAA
12173670 TGGAAATAAA
Statistics
Matches: 2385, Mismatches: 505, Indels: 195
0.77 0.16 0.06
Matches are distributed among these distances:
336 3 0.00
337 61 0.03
338 107 0.04
339 295 0.12
340 200 0.08
341 660 0.28
342 805 0.34
343 241 0.10
344 11 0.00
345 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (338 bp):
ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCACTTCATGTTTCCAATGCAAACATCCAA
TTATGATTGATTTTAACCAAAAATGAAAAAATTTTGATTTAAAATCATTTATAAGATTATAAAAC
CATTTAAAGCGAGTAACAAGGCTTTCGATAGCATGAGTGACTATAAATGGACTTTTCTTGTCAAT
GGATGGCTTTCGCTTCATGTTTTCTGATGCAAACATCCAATTATGATCTATTTTAACCAAAAACA
AAAAAGATTTCAATTAAAATCATTTATAAGATTATAAAACATTTAAAGCGAGTAACAAGGCTTTC
GAAGGCATGAGTG
Found at i:12172811 original size:512 final size:514
Alignment explanation
Indices: 12170340--12173624 Score: 2483
Period size: 512 Copynumber: 6.4 Consensus size: 514
12170330 ATTATTAATA
* * ** * *
12170340 ACTATAAATGAAATTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCACGATGTGATA-ATCC
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTC-C-ATG-CAAACATCC
* * * * *
12170404 AAATATGATCT-ATTTTAACCACAAATGAAAAACATTTCGATTTGAAATCATTTATAAGATTATA
63 AATTATGAT-TGATTTTAACCAAAAATGAAAAAGATTTCAATTTAAAATCATTTATAAGATTATA
* * * ** * *
12170468 TAACCATTTAAAGTGAGTAACTAGGCTTTCGATA-ATATGAGTGACTATAAATGGACTTTTCTTA
127 AAACCATTTAAAGCGAGTAACAAGGCTTTCGA-AGGCATGAGTGACTATAAATGGACTTTTATTG
* * * * * * * * *
12170532 ACAATGAATGGCATCCGCTTCATGTTT-CCTAGTGCAAACATAAAATTATGAT-TAATTTTCAA-
191 TCAATGGATGGCTTCTGCTTCACGTTTCCCGA-TGCAAAAATCAAATTATGATCT-GTTTT-AAC
** * ** ** * * *
12170594 -AAGAAATGAAAAAGATTTCAACGT-AAAATCCTTTTTAAGATTATAAAATC-ATTTAAAGCGAG
253 CAA-AAACAAAAAATATTTTGATTTGAAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAG
* * * * *
12170656 TAACAAGGCTTTCGAAGGCATAAGTGACTATAAATGGACTTTTCTCGTCAATGGTTAG-CATCCA
317 TAACAAGGCTTTCGAAGGCATAAGTGACTATAAATAGACTTTTCTTGTCAATGGAT-GTCATTCG
* * **
12170720 CTTCATGTTTCTCA-ATGTAAACATCTAATTATGAT-TGATTTTATTCAAAAATGAAAACA-ATT
381 CTTCATGTTTC-CAGATGCAAACATCCAATTATGATATG-TTTTAACCAAAAATGAAAA-AGATT
* * * * * * * *
12170782 TTGATTTAAAATCGTTTATAAGATTATAAAA-CCATTTAAAGTGAGTAACAAGGCTTTTGATAGC
443 TTAATTTTAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGCAACAAGGCTTTCGAAAGC
12170846 ATGAGTG
508 ATGAGTG
* * * * *
12170853 ACTATAAATGGACTTTTTTTGTCAATGGATGGCTTTCGCTTCATGTTTTCTGATGTAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATG-TTTC-CATGCAAACATCCA
* * ** * *
12170918 GTTATGATCT-ATTTTAACCAGAAACAAAAAAGATTTTGAA-TTAAAATCATTTATATGATTATA
64 ATTATGAT-TGATTTTAACCAAAAATGAAAAAGA-TTTCAATTTAAAATCATTTATAAGATTATA
* * * * * * ** * *
12170981 AAACC-TTTAAAGCAATTCACTAGGATTTTTCGATGGCAAAAGTAACTATAAATGGACTTTTCTT
127 AAACCATTTAAAGCGAGTAACAAGG--CTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATT
* * * *** * ** *
12171045 GTCAATGGATCGCATCTGTTTTCTA--TTTCTTAATGCAAACAATC-AATTATGACCAATCTTAA
190 GTCAATGGATGGCTTCTG-CTTC-ACGTTTCCCGATGCAAA-AATCAAATTATGATCTGTTTTAA
* * * * * * * *
12171107 -TAAATAATGAAAAAA-ATTTTAATTT-AAAATCATTTACAAAATTATAAAA-CCATTTAAGGCA
252 CCAAA-AA-CAAAAAATATTTTGATTTGAAAATCATTTATAAGATTATAAAAGCTATTTAAAGCG
* * * * * * *
12171168 AATAACAAGACTTTCGAAGGCATGAGTGACTATAAATGGACTTTTTTTGACACA--AATGTCATT
315 AGTAACAAGGCTTTCGAAGGCATAAGTGACTATAAATAGACTTTTCTTGTCA-ATGGATGTCATT
* ** * * * * * *
12171231 -GCCTTTATGTTTTCCA-AACCAAACCTCTAGTTATGATA-GGTTTCACCAAAAA-CAAAAAGAT
379 CG-CTTCATG-TTTCCAGATGCAAACATCCAATTATGATATGTTTTAACCAAAAATGAAAAAGAT
* * * * * ** * * * ** * *
12171292 TTTCACTTAAAATTATTTATAGGACCATAAAA-CCAATTAAAGTGAATAATAAGGCTTTCGAAGG
442 TTTAATTTTAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGCAACAAGGCTTTCGAAAG
12171356 CATGAGTG
507 CATGAGTG
* * * * *
12171364 TCTATAAATGGACTTTTCTTGTCAATGGATGGCATCTGTTTCATATTTCCTAATGTAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCC--ATGCAAACATCCA
*** * *
12171429 ATTATGAACAATTTTAACAAAAAATGAAAAAGATTTTGAA-TTAAAATCATTTATAAGATTATAA
64 ATTATGATTGATTTTAACCAAAAATGAAAAAGA-TTTCAATTTAAAATCATTTATAAGATTATAA
* * * * * *
12171493 AACCATTCAAAGCGAGTAATAAGGCTTTCGAATGCATGAGTGACTGTAAATGGGCTTTTCTTGTC
128 AACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTGTC
* * * * *
12171558 AATGGATGGCTTCTAG-TTCATGTTTCCTCGATGCAAACATCCAATTATGATCTATTTTAACTAA
193 AATGGATGGCTTCT-GCTTCACGTTTCC-CGATGCAAAAATCAAATTATGATCTGTTTTAACCAA
* * * * * * * * *
12171622 AAATAAAAAAGA-TTTCATTTTAAAATCATTTAT-ATATGATAAAATC-ATGTAAAGCGAGTAAT
256 AAACAAAAAATATTTTGATTTGAAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGTAAC
* ** * * *
12171684 AAGGGTTTC-AATGGCATAAGCAACTATAAATGGACTTTTCTTGTCAATGGATGGT-TTTCACTT
321 AAGGCTTTCGAA-GGCATAAGTGACTATAAATAGACTTTTCTTGTCAATGGAT-GTCATTCGCTT
** * * * *
12171747 CACATTTCCCA-ATGCAAACATCCAATTATGATATGTTTGAAACAAGAATGGAAAAGATTTTAA-
384 CATGTTT-CCAGATGCAAACATCCAATTATGATATGTTTTAACCAAAAATGAAAAAGATTTTAAT
* * * * ** * *
12171810 TTTAATATCATTTATAA-ATTATAAAATCCATTTAAAGCGAGTAACTAGGGATTCG-ATGGATGA
448 TTTAA-ATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGCAACAAGGCTTTCGAAAGCATGA
12171873 GTG
512 GTG
* * **
12171876 ATTATAAAT-GAGCTTTTCTTGTCAATGGATAGCATTTGCTTCACT-TTTCCCAATGCAAACATC
1 ACTATAAATGGA-CTTTTCTTGTCAATGGATGGCATCCGCTTCA-TGTTT-CC-ATGCAAACATC
** * * *
12171939 CAA-TATGATCTG-TTTTAA-CAAAAAACAAAACGATTTCAACTTAAAATCATTTATAGGATTAT
62 CAATTATGAT-TGATTTTAACCAAAAATGAAAAAGATTTCAATTTAAAATCATTTATAAGATTAT
* * * * *
12172001 AAAACCAGTTAAAACTAGTAACAAGGGTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCA-C
126 AAAACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTT-ATT
* * * * * *
12172065 GTCAATGAATGTCATCTGCTTCACATTTCCCAATG-AAAAAT-AGAATTATGAT-GGTTTTGAAC
190 GTCAATGGATGGCTTCTGCTTCACGTTTCCCGATGCAAAAATCA-AATTATGATCTGTTTT-AAC
* * * ** * *
12172127 C-GAAAC-AAAAGTGATTTTGATTT-AAGATCATTTATAAGATTATCTAA-CAATTTAAAGTGAG
253 CAAAAACAAAAAAT-ATTTTGATTTGAAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAG
* * * * * *
12172188 TAACTAGGCTTTCGATGGCATAAGTGACCATAAA-AGGACTTTTCCTATCAATGGATG-CTATTT
317 TAACAAGGCTTTCGAAGGCATAAGTGACTATAAATA-GACTTTTCTTGTCAATGGATGTC-ATTC
* * * ** * *
12172251 GCTTCACGTTTCTC-GAAGCAAATATCCAATTATGATAAATTTTAACCAAAAATGAAAAACATTC
380 GCTTCATGTTTC-CAGATGCAAACATCCAATTATGATATGTTTTAACCAAAAATGAAAAAGATTT
* * * * * *
12172315 CAATTTTAAACCATATATGAGATTATAAAA-CTATTTAAAGCAAGCAGCAAGGCTTTCGAAAGCA
444 TAATTTTAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGCAACAAGGCTTTCGAAAGCA
*
12172379 TGAGTA
509 TGAGTG
* * * * *
12172385 ACTACAAACGGACTTTTCTTGTCAATGGATGGCATCCGTTTGATGTTTACCACTGTAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTT-CCA-TGCAAACATCCA
* * * *
12172450 ATTATGATTGATTTTAACCAAAAATGAAAATGATTTCAATTTCAAATCCTTTATCAGATTATAAA
64 ATTATGATTGATTTTAACCAAAAATGAAAAAGATTTCAATTTAAAATCATTTATAAGATTATAAA
* * ** * * * *
12172515 AACATTTAAAGCGAGTAATAATACTTTCGAGGGCAAGAGTGACTATAAATGGACTTTTATTATAA
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTGTCA
* * * ** * **
12172580 ATGGATAGCTTTTGCTTCATGTTTCTTGATGCAAAAATCAAATTATAATCTGTTCAAACCAAAAA
194 ATGGATGGCTTCTGCTTCACGTTTCCCGATGCAAAAATCAAATTATGATCTGTTTTAACCAAAAA
12172645 CAAAAAATATTTTGA-TTGAAAATCATTTATAA-A-TA-ACAAAGCTATTTAAAGCGAGTAACAA
259 CAAAAAATATTTTGATTTGAAAATCATTTATAAGATTATA-AAAGCTATTTAAAGCGAGTAACAA
* * * * * *
12172706 GGCTTTTGAAGGCTTGAGTGACTTTAAATAGACTTTTCTTGTCCATGGATGTCATTCGCTTTATG
323 GGCTTTCGAAGGCATAAGTGACTATAAATAGACTTTTCTTGTCAATGGATGTCATTCGCTTCATG
* * * * *
12172771 TTACCAGTTGCAAACATCCAAATATAATATGTTTTAACCAAAAATGAAAAAGATTTT-GTTTTGA
388 TTTCCAGATGCAAACATCCAATTATGATATGTTTTAACCAAAAATGAAAAAGATTTTAATTTT-A
* * * * * **
12172835 AGTCATTTACAACATTATAAAAGCT-TTTTAAGCGAGTC-ACTAGGCTTTCGATGGCATGAGTG
452 AATCATTTATAAGATTATAAAAGCTATTTAAAGCGAG-CAACAAGGCTTTCGAAAGCATGAGTG
* * * * * * * *
12172897 ACTATAAATTGACTTTTCTTGTGAATGGATGACATTCACTTCACGTTTCTTGAAGCAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTC--CATGCAAACATCCA
* ** * * * *
12172962 ATTATCATTGATTTTAATAAAAAATGAAAAAAAGTTT-GATCTAAAATCATTTACAAGATTATAA
64 ATTATGATTGATTTTAACCAAAAATGAAAAAGA-TTTCAATTTAAAATCATTTATAAGATTATAA
* ** *
12173026 AACTATTTAAAGAAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC
128 AACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTGTC
* * * * ** * *
12173091 TATGGATGGCTTCTACTTCACGTTTCCTGATGCAAACATCCCATTATGCTTTGTTTTAACCAAAA
193 AATGGATGGCTTCTGCTTCACGTTTCCCGATGCAAAAATCAAATTATGATCTGTTTTAACCAAAA
* * *
12173156 ATAAAAAAAATTTTGATTTG-AAATCATTTATAAGATTATAAAAG-TATTTAAAGCAAGTAACAA
258 ACAAAAAATATTTTGATTTGAAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGTAACAA
** * * * * *
12173219 GGCTTTCGAACACATGA-TGACTATAAATGGACTTTTCTTGTCAATGCATGGCTTTCGCTTCATG
323 GGCTTTCGAAGGCATAAGTGACTATAAATAGACTTTTCTTGTCAATGGATGTCATTCGCTTCATG
* * * * * * * * * * *
12173283 TTTCCTA-ATTCAAACAGCCAATTACGCTATGCTATAACCAAAAAAGAAAAGGATTTTGATATGA
388 TTTCC-AGATGCAAACATCCAATTATGATATGTTTTAACCAAAAATGAAAAAGATTTTAATTTTA
* * * * * *
12173347 AATAATTTATAAGATTATAAAA-CTATTTAAAGTGAGTAACAAGGCTTTTG-AAGAAATAAGTG
452 AATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGCAACAAGGCTTTCGAAAG-CATGAGTG
* * * * *
12173409 TCTATAAATGGACTTTTCTTATCAATGGATGGCATCCACTTAATGTTTCATGATGCAAACATCCA
1 ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTC--CATGCAAACATCCA
* *
12173474 ATTATGATTGATTTTAACCAAAAATGAAAAAGATTTCAATTTAAAAGCATTTATAAGATTAGAAA
64 ATTATGATTGATTTTAACCAAAAATGAAAAAGATTTCAATTTAAAATCATTTATAAGATTATAAA
* ** * * * * *
12173539 ACCGTTTAAAGAAAGTAGCAAGGCTTTTGAATGCATTAATGACTATAAATGGACTATTT-TTGTC
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACT-TTTATTGTC
*
12173603 AAT-GATGGCATTCT-CTTTACGT
193 AATGGATGGC-TTCTGCTTCACGT
12173625 GTTTCTTGAT
Statistics
Matches: 2192, Mismatches: 478, Indels: 206
0.76 0.17 0.07
Matches are distributed among these distances:
506 4 0.00
507 22 0.01
508 169 0.08
509 90 0.04
510 251 0.11
511 393 0.18
512 824 0.38
513 253 0.12
514 172 0.08
515 13 0.01
516 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (514 bp):
ACTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCCATGCAAACATCCAAT
TATGATTGATTTTAACCAAAAATGAAAAAGATTTCAATTTAAAATCATTTATAAGATTATAAAAC
CATTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTGTCAAT
GGATGGCTTCTGCTTCACGTTTCCCGATGCAAAAATCAAATTATGATCTGTTTTAACCAAAAACA
AAAAATATTTTGATTTGAAAATCATTTATAAGATTATAAAAGCTATTTAAAGCGAGTAACAAGGC
TTTCGAAGGCATAAGTGACTATAAATAGACTTTTCTTGTCAATGGATGTCATTCGCTTCATGTTT
CCAGATGCAAACATCCAATTATGATATGTTTTAACCAAAAATGAAAAAGATTTTAATTTTAAATC
ATTTATAAGATTATAAAAGCTATTTAAAGCGAGCAACAAGGCTTTCGAAAGCATGAGTG
Found at i:12175215 original size:35 final size:35
Alignment explanation
Indices: 12175186--12175293 Score: 162
Period size: 35 Copynumber: 3.1 Consensus size: 35
12175176 GGAGTGCGTG
* *
12175186 TGATGAGATTGAAATGTGCGTGTAGGGAGTACACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
12175221 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
*** *
12175256 TGATGATATTGCCTTGTGCGTGTAGGGAGTGCAGA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
12175291 TGA
1 TGA
12175294 GCTGAGTAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.29
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
Found at i:12176438 original size:171 final size:171
Alignment explanation
Indices: 12176059--12176661 Score: 563
Period size: 171 Copynumber: 3.5 Consensus size: 171
12176049 ATTTAAAAAA
* * * * * * *
12176059 ATTTACAAGATTATAAAACCGTTTAAAGCAAGTAACAATGCTTTCGAACGTATGAGTGACTATAA
1 ATTTATAAAATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAAGGCATGAGTGACTATAA
* * ** *** * * * *
12176124 ATGGACTTTTCTTGTCAAT-GATGGCATCCACTTTACATTTCTTGATTCAAACATCCATTTATGA
66 ATGGACTTTTCTTATCAATGGATGGCATCCACTTCATGTTTCCCAATGCAAACAACCAATTATGC
* * * * * *
12176188 TC-GGTTTATCC-AAAATGAAACAGAGTTT-GA-TTTAAA-A
131 TCTGTTTTAACCAAAAATGAAAAAGA-TTTCAACTTGAAATC
* * ** * *
12176225 AGTCTACAGGATTATAAAACCATTTGAAGCAAGTAACAAGGCTTTCAAAGGCTTGAGTGACTATA
1 A-TTTATAAAATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAAGGCATGAGTGACTATA
** * * *** * * *
12176290 AATAAACTTTTCTTGTCAATGGATGGCTTTTGCTTCATGTTTCCTAATGCAAACATCCAGTTATG
65 AATGGACTTTTCTTATCAATGGATGGCATCCACTTCATGTTTCCCAATGCAAACAACCAATTATG
* * ***
12176355 CTTTGTTTTAATCAAAAATGAAAAAGATGTT-GGTTTGAAATC
130 CTCTGTTTTAACCAAAAATGAAAAAGAT-TTCAACTTGAAATC
* * **
12176397 ATTTATAAAATTATAAAACCATTTAAAGCAAGTGACAAGGCTTTCAAATGCATGAGTGACTGCAA
1 ATTTATAAAATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAAGGCATGAGTGACTATAA
* * * * *
12176462 ATGGATTTTTCTTTTCAATGGATGGCATCCACTTCCTGTTTCCCAATTCAAACAAGCAATTATGC
66 ATGGACTTTTCTTATCAATGGATGGCATCCACTTCATGTTTCCCAATGCAAACAACCAATTATGC
* *
12176527 TCTGTTTTAACCAAAAATTAGAAAGATTTCAACTTGAAATC
131 TCTGTTTTAACCAAAAATGAAAAAGATTTCAACTTGAAATC
* ** * * * *
12176568 ATTTGTAAGCTTATAAAACCATTTAAAGTAAGTAATAAGGCTTTCAAAGGAATGAGTGTCTATAA
1 ATTTATAAAATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAAGGCATGAGTGACTATAA
12176633 ATGGACTTTTCTTATCAATGGATGGCATC
66 ATGGACTTTTCTTATCAATGGATGGCATC
12176662 TGCTTAACAT
Statistics
Matches: 354, Mismatches: 75, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
166 1 0.00
167 72 0.20
168 34 0.10
169 7 0.02
170 17 0.05
171 222 0.63
172 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (171 bp):
ATTTATAAAATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAAGGCATGAGTGACTATAA
ATGGACTTTTCTTATCAATGGATGGCATCCACTTCATGTTTCCCAATGCAAACAACCAATTATGC
TCTGTTTTAACCAAAAATGAAAAAGATTTCAACTTGAAATC
Found at i:12177162 original size:171 final size:171
Alignment explanation
Indices: 12176720--12178366 Score: 1317
Period size: 171 Copynumber: 9.7 Consensus size: 171
12176710 AAAAATGAAT
* ** * ** *
12176720 CAAACATCCATTTATGATCAATTTTATCCAAAAATGAAAAAGAGTTT-GATTTAAAAAAATTTAC
1 CAAACATCCAATTATGATCTGTTTTAACCAAAAATGAAAAAGA-TTTCGATTTAAAATCATTTAT
* * * *
12176784 AAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTTGAACGCATGAGTGACTATAAATAGAC
65 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGAC
* * * *
12176849 TTATT-TTGTCAAT-GATGGCATTC-GCTTTACA-TTTCTTGATT
130 TT-TTCTTATCAATGGATGGC-TTCTGCTTCACATTTTC-TAATG
* * * * * ** *
12176890 CAAACATCCATTTGTGATC-GATTTATCCAAAAATGAAAAAGAGTTTTGATTTAAAAAAATTTAC
1 CAAACATCCAATTATGATCTGTTTTAACCAAAAATGAAAAAGA-TTTCGATTTAAAATCATTTAT
* *
12176954 AAGATTATAAAACCATTTAAAGCAAATAACAAGGCTTTCAAAGGCATGAGTGACTATAAATGGAC
65 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGAC
* * *
12177019 TTTTCTTGTCAATGGATGGCTTTTGCTTCACATTTTCTAAAG
130 TTTTCTTATCAATGGATGGCTTCTGCTTCACATTTTCTAATG
** * * *
12177061 CAAACATCCAATTATGATCTGTTTTAACCAAAAACAAAAAAGATTTTGATTTGAAATCATTTGTA
1 CAAACATCCAATTATGATCTGTTTTAACCAAAAATGAAAAAGATTTCGATTTAAAATCATTTATA
* * * ** * * * *
12177126 AGATTATAAAACCATTTTAAGCGAGTCATTAGGCTTTCGATGGCATGAATGAGTACAAATGGACT
66 AGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACT
* * ** * **
12177191 TTCCTTACCAATGGATGG-TATCCACTTCA-TTTTTCCCGATG
131 TTTCTTATCAATGGATGGCT-TCTGCTTCACATTTT-CTAATG
* * * * *
12177232 CAAACAT-CAATTTATGA-ATGAATTTAACCAAAAATGAAAAAGATTTTGATTTAAAAGCCTTTA
1 CAAACATCCAA-TTATGATCTG-TTTTAACCAAAAATGAAAAAGATTTCGATTTAAAATCATTTA
* ** * * *
12177295 TAAGATTATAAAGCCATTTAAA-CTAAGTAACCAA-GCTTTCGAAGATACGAGTGATTGTAAATG
64 TAAGATTATAAAACCATTTAAAGC-AAGTAA-CAAGGCTTTCGAAGGCATGAGTGACTATAAATG
* * * * * *
12177358 GACTTGTCTTCTCAATGCATGGCATGTG-TT-TCATGTTTCTTAATG
127 GACTTTTCTTATCAATGGATGGCTTCTGCTTCACAT-TTTC-TAATG
** * * * * * *
12177403 GTAACATACAAATATGACCTGTTTTAACCAAAAA-CAAGAA-ATTTCGATCTAAAATCATTTATA
1 CAAACATCCAATTATGATCTGTTTTAACCAAAAATGAAAAAGATTTCGATTTAAAATCATTTATA
* * *
12177466 AGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGAATATAGATAGACT
66 AGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACT
** * *
12177531 TTTCTTGGCAAT-GATCGCTTTTGCTTCACA-TTTCTAGATG
131 TTTCTTATCAATGGATGGCTTCTGCTTCACATTTTCTA-ATG
* * * * * *
12177571 CATATATCCAATTATGATATATTTTAA-TAAAAATGAAAAAGATTTTGATTTAAAATCATTTA-A
1 CAAACATCCAATTATGATCTGTTTTAACCAAAAATGAAAAAGATTTCGATTTAAAATCATTTATA
* ** * * * *
12177634 ATATTATAAAACCATTTAAAG-TGGTTAACAAGACATTCGAAGGTATGAGTGACTATAAATGAAC
66 AGATTATAAAACCATTTAAAGCAAG-TAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGAC
* * ** *
12177698 TTTTCTTATCAATGGATGGCATCCT-CTTCACGTTACCCAATG
130 TTTTCTTATCAATGGATGGC-TTCTGCTTCACATTTTCTAATG
* * * * *
12177740 CAAACATGCAAATATGATTTGTTTTAACCAAAAA-CAAAAGAAATTTCGATTTAAAATCATTTAT
1 CAAACATCCAATTATGATCTGTTTTAACCAAAAATGAAAA-AGATTTCGATTTAAAATCATTTAT
* * * ** * ** * *
12177804 ATGATTATAAAACCATTTAAAACAAGTAACTAGAATTTTGATTGCATAAATGACTATAAATGGAC
65 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGAC
* * * * * * *
12177869 ATTTCTTCTTAATGGATAGCTT-TCACTTCAC-GTTTCCAATG
130 TTTTCTTATCAATGGATGGCTTCT-GCTTCACATTTTCTAATG
* * * * *
12177910 TAAACATCAAATTATGTTC-GATTTTTACCAAAAATGAAAAAGATTTCAATTTAAAATCATTTAT
1 CAAACATCCAATTATGATCTG-TTTTAACCAAAAATGAAAAAGATTTCGATTTAAAATCATTTAT
* * ** * * * *
12177974 AAGATTATAAAACTATTAAAAGGGATTAACAATGATTTCGAAGGCATCAGTGACTATAAATGGAC
65 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGAC
* * ** * *
12178039 TTTTCTTATCAATTGATGGCATCTGCTTCATGTTTCCCAATG
130 TTTTCTTATCAATGGATGGCTTCTGCTTCACATTTTCTAATG
* * * * *
12178081 CGAACATCCAATTATGATC-GATTTTAACCAATAATGGAAAAGATTTCGCTTTAAAACCATTTAT
1 CAAACATCCAATTATGATCTG-TTTTAACCAAAAATGAAAAAGATTTCGATTTAAAATCATTTAT
* * * * * * * * * *
12178145 AAGATTACAAAACCCTTTAATGCGAGTAACTAGGTTTTTGACTA-TC-TGAGTGACTGTAAAAGG
65 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGA--AGGCATGAGTGACTATAAATGG
* * **
12178208 ACTTTTCTCATCAATGGAT-GATATCCACTTCAC-TTTTCTCAATG
128 ACTTTTCTTATCAATGGATGGCT-TCTGCTTCACATTTTCT-AATG
* ** * *
12178252 CAAGCATCCAATT-TAGATCAATTTTAACTAAAAATGAAAAA-ATATTCAATTTAAAATCATTTA
1 CAAACATCCAATTAT-GATCTGTTTTAACCAAAAATGAAAAAGAT-TTCGATTTAAAATCATTTA
* * * *
12178315 TAAGATTATAAAACCTTTTAAAGCGAGTAACAAGGCTTTCAAAGCCATGAGT
64 TAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGT
12178367 AACAAGGCTT
Statistics
Matches: 1169, Mismatches: 260, Indels: 95
0.77 0.17 0.06
Matches are distributed among these distances:
167 8 0.01
168 103 0.09
169 169 0.14
170 294 0.25
171 563 0.48
172 31 0.03
173 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (171 bp):
CAAACATCCAATTATGATCTGTTTTAACCAAAAATGAAAAAGATTTCGATTTAAAATCATTTATA
AGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACT
TTTCTTATCAATGGATGGCTTCTGCTTCACATTTTCTAATG
Found at i:12177260 original size:551 final size:549
Alignment explanation
Indices: 12176170--12177269 Score: 1314
Period size: 551 Copynumber: 2.0 Consensus size: 549
12176160 ATTTCTTGAT
* * * *
12176170 TCAAACATCCATTTATGATCGGTTTATCCAAAATGAAACAGAGTTTGATTTAAAAAGTCTACAGG
1 TCAAACATCCATTTATGATCAGTTTATCCAAAATGAAAAAGAGTTTGATTTAAAAAATCTACAAG
* * *
12176235 ATTATAAAACCATTTGAAGCAAGTAACAAGGCTTTCAAAGGCTTGAGTGACTATAAATAAACTTT
66 ATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAACGCATGAGTGACTATAAATAAACTTT
* * ** * * *
12176300 TCTTGTCAATGGATGGCTTTTGCTTCATGTTTCCTAATGCAAACATCCAGTTATGCTTTGTTTTA
131 TCTTGTCAATGGATGGCATTCGCTTCACATTTCCTAATGCAAACATCCAGTTATGCATCGATTTA
* * ** * *
12176365 ATCAAAAATGAAAAAGATGTTGGTTTGAAATCATTTATAAAATTATAAAACCATTTAAAGCAAGT
196 ATCAAAAATGAAAAAGATGTTGATTTAAAAAAATTTACAAAATTATAAAACCATTTAAAGCAAAT
* * * * *
12176430 GACAAGGCTTTCAAATGCATGAGTGACTGCAAATGGATTTTTCTTTTCAATGGATGGCATCCACT
261 AACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTCAATGGATGGCATCCACT
** * * ** *
12176495 TCCTGTTTCCCAATTCAAACAAGCAATTATGCTCTGTTTTAACCAAAAATTAGAAAGATTTCAAC
326 TCCTGTTTCCCAAAGCAAACAACCAATTATGATCTGTTTTAACCAAAAACAAAAAAGATTTCAAC
* * *
12176560 TTGAAATCATTTGTAAGCTTATAAAACCATTTAAAGTAAGTAATAAGGCTTTCAAAGGAATGAGT
391 TTGAAATCATTTGTAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGAATGAAT
* * * * **
12176625 GTCTATAAATGGACTTTTCTTATCAATGGATGGCATCTGCTTAACATTTCACAATAAAAAAATCA
456 GACTACAAATGGACTTTCCTTACCAATGGATGGCATCCACTTAACATTTCACAATAAAAAAATCA
*
12176690 AATTATGATCGATTTTAACCAAAAATGAA
521 AATTATGATCGAATTTAACCAAAAATGAA
* *
12176719 TCAAACATCCATTTATGATCAATTTTATCCAAAAATGAAAAAGAGTTTGATTTAAAAAAATTTAC
1 TCAAACATCCATTTATGATC-AGTTTATCC-AAAATGAAAAAGAGTTTGATTT-AAAAAATCTAC
* ** *
12176784 AAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTTGAACGCATGAGTGACTATAAATAGAC
63 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAACGCATGAGTGACTATAAATAAAC
* * * * * *
12176849 TTATT-TTGTCAAT-GATGGCATTCGCTTTACATTTCTTGATTCAAACATCCATTTGTG-ATCGA
128 TT-TTCTTGTCAATGGATGGCATTCGCTTCACATTTCCTAATGCAAACATCCAGTTATGCATCGA
* *
12176911 TTT-ATCCAAAAATGAAAAAGAGTTTTGATTTAAAAAAATTTACAAGATTATAAAACCATTTAAA
192 TTTAAT-CAAAAATGAAAAAGA-TGTTGATTTAAAAAAATTTACAAAATTATAAAACCATTTAAA
* *
12176975 GCAAATAACAAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCT
255 GCAAATAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTCAATGGATGGCA
*** * *
12177040 TTTGCTTCACAT-TTT-CTAAAGCAAACATCCAATTATGATCTGTTTTAACCAAAAACAAAAAAG
320 TCCACTTC-C-TGTTTCCCAAAGCAAACAACCAATTATGATCTGTTTTAACCAAAAACAAAAAAG
** * * * * * * *
12177103 ATTTTGATTTGAAATCATTTGTAAGATTATAAAACCATTTTAAGCGAGTCATTAGGCTTTCGATG
383 ATTTCAACTTGAAATCATTTGTAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAG
* * * * ** * * **
12177168 GCATGAATGAGTACAAATGGACTTTCCTTACCAATGGATGGTATCCACTTCATTTTTCCCGATGC
448 GAATGAATGACTACAAATGGACTTTCCTTACCAATGGATGGCATCCACTTAACATTTCACAATAA
* *
12177233 AAACATCAATTTATGAAT-GAATTTAACCAAAAATGAA
513 AAAAATCAAATTATG-ATCGAATTTAACCAAAAATGAA
12177270 AAAGATTTTG
Statistics
Matches: 458, Mismatches: 84, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
549 22 0.05
550 27 0.06
551 324 0.71
552 82 0.18
553 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (549 bp):
TCAAACATCCATTTATGATCAGTTTATCCAAAATGAAAAAGAGTTTGATTTAAAAAATCTACAAG
ATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCAAACGCATGAGTGACTATAAATAAACTTT
TCTTGTCAATGGATGGCATTCGCTTCACATTTCCTAATGCAAACATCCAGTTATGCATCGATTTA
ATCAAAAATGAAAAAGATGTTGATTTAAAAAAATTTACAAAATTATAAAACCATTTAAAGCAAAT
AACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTCAATGGATGGCATCCACT
TCCTGTTTCCCAAAGCAAACAACCAATTATGATCTGTTTTAACCAAAAACAAAAAAGATTTCAAC
TTGAAATCATTTGTAAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGAATGAAT
GACTACAAATGGACTTTCCTTACCAATGGATGGCATCCACTTAACATTTCACAATAAAAAAATCA
AATTATGATCGAATTTAACCAAAAATGAA
Found at i:12177436 original size:722 final size:719
Alignment explanation
Indices: 12176038--12177382 Score: 1876
Period size: 722 Copynumber: 1.9 Consensus size: 719
12176028 GCTATGATAG
* *
12176038 AAAAGAGTTTGATTTAAAAAAATTTACAAGATTATAAAACCGTTTAAAGCAAGTAACAATGCTTT
1 AAAAGAGTTTGATTTAAAAAAATTTACAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTT
* *
12176103 CGAACGTATGAGTGACTATAAATGGACTTTTCTTGTCAATGATGGCATCCACTTTACATTTCTTG
66 CGAACGCATGAGTGACTATAAATAGACTTTTCTTGTCAATGATGGCATCCACTTTACATTTCTTG
* * *
12176168 ATTCAAACATCCATTTATGATCGGTTTATCCAAAATGAAACAGAGTTTGATTTAAAAAGTCTACA
131 ATTCAAACATCCATTTATGATCGATTTATCCAAAATGAAAAAGAGTTTGATTTAAAAAATCTACA
* * * *
12176233 GGATTATAAAACCATTTGAAGCAAGTAACAAGGCTTTCAAAGGCTTGAGTGACTATAAATAAACT
196 AGATTATAAAACCATTTAAAGCAAATAACAAGGCTTTCAAAGGCATGAGTGACTATAAATAAACT
** * * * *
12176298 TTTCTTGTCAATGGATGGCTTTTGCTTCATGTTTCCTAATGCAAACATCCAGTTATGCTTTGTTT
261 TTTCTTGTCAATGGATGGCTTTTGCTTCACATTTCCTAAAGCAAACATCCAATTATGATCTGTTT
* ** *
12176363 TAATCAAAAATGAAAAAGATGTTGGTTTGAAATCATTTATAAAATTATAAAACCATTTAAAGCAA
326 TAACCAAAAACAAAAAAGATGTTGATTTGAAATCATTTATAAAATTATAAAACCATTTAAAGCAA
* * * * * **
12176428 GTGACAAGGCTTTCAAATGCATGAGTGACTGCAAATGGATTTTTCTTTTCAATGGATGGCATCCA
391 GTCACAAGGCTTTCAAATGCATGAATGACTACAAATGGACTTTCCTTACCAATGGATGGCATCCA
* * ** * * *
12176493 CTTCCTGTTTCCCAATTCAAACAAGCAATTATGCTCTGTTTTAACCAAAAATTAGAAAGATTTCA
456 CTTCATGTTTCCCAATGCAAACAAGCAATTATGCAATGATTTAACCAAAAATGAAAAAGATTTCA
* * * * * * *
12176558 ACTTGAAATCATTTGTAAGCTTATAAAACCATTTAAAGTAAGTAATAAGGCTTTCAAAGGAATGA
521 ACTTAAAAGCATTTATAAGATTATAAAACCATTTAAACTAAGTAACAAGGCTTTCAAAGGAACGA
* *
12176623 GTGTCTATAAATGGACTTTTCTTATCAATGGATGGCATCTGCTTAACATTTCACAATAAAAAAAT
586 GTGTCTATAAATGGACTTGTCTTATCAATGCATGGCATCTGCTTAACATTTCACAATAAAAAAAT
*
12176688 CAAATTATGATCGATTTTAACCAAAAATGAATCAAACATCCATTTATGATCAATTTTATCCAAAA
651 CAAATTATGACCGATTTTAACCAAAAATGAATCAAACATCCATTTATGATCAATTTTATCCAAAA
12176753 ATGA
716 ATGA
*
12176757 AAAAGAGTTTGATTTAAAAAAATTTACAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTT
1 AAAAGAGTTTGATTTAAAAAAATTTACAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTT
* * *
12176822 TGAACGCATGAGTGACTATAAATAGACTTATT-TTGTCAATGATGGCATTCGCTTTACATTTCTT
66 CGAACGCATGAGTGACTATAAATAGACTT-TTCTTGTCAATGATGGCATCCACTTTACATTTCTT
* *
12176886 GATTCAAACATCCATTTGTGATCGATTTATCCAAAAATGAAAAAGAGTTTTGATTTAAAAAAATT
130 GATTCAAACATCCATTTATGATCGATTTATCC-AAAATGAAAAAGAG-TTTGATTT-AAAAAATC
*
12176951 TACAAGATTATAAAACCATTTAAAGCAAATAACAAGGCTTTCAAAGGCATGAGTGACTATAAATG
192 TACAAGATTATAAAACCATTTAAAGCAAATAACAAGGCTTTCAAAGGCATGAGTGACTATAAATA
* *
12177016 GACTTTTCTTGTCAATGGATGGCTTTTGCTTCACATTTTCTAAAGCAAACATCCAATTATGATCT
257 AACTTTTCTTGTCAATGGATGGCTTTTGCTTCACATTTCCTAAAGCAAACATCCAATTATGATCT
* * * *
12177081 GTTTTAACCAAAAACAAAAAAGATTTTGATTTGAAATCATTTGTAAGATTATAAAACCATTTTAA
322 GTTTTAACCAAAAACAAAAAAGATGTTGATTTGAAATCATTTATAAAATTATAAAACCATTTAAA
* ** * * *
12177146 GCGAGTCATTAGGCTTTC-GATGGCATGAATGAGTACAAATGGACTTTCCTTACCAATGGATGGT
387 GCAAGTCACAAGGCTTTCAAAT-GCATGAATGACTACAAATGGACTTTCCTTACCAATGGATGGC
* * *
12177210 ATCCACTTCATTTTTCCCGATGCAAAC-ATCAATTTATG-AATGAATTTAACCAAAAATGAAAAA
451 ATCCACTTCATGTTTCCCAATGCAAACAAGCAA-TTATGCAATG-ATTTAACCAAAAATGAAAAA
** * * * *
12177273 GATTTTGATTTAAAAGCCTTTATAAGATTATAAAGCCATTTAAACTAAGTAACCAA-GCTTTCGA
514 GATTTCAACTTAAAAGCATTTATAAGATTATAAAACCATTTAAACTAAGTAA-CAAGGCTTTCAA
* *
12177337 A-GATACGAGTGAT-TGTAAATGGACTTGTCTTCTCAATGCATGGCAT
578 AGGA-ACGAGTG-TCTATAAATGGACTTGTCTTATCAATGCATGGCAT
12177383 GTGTTTCATG
Statistics
Matches: 542, Mismatches: 74, Indels: 17
0.86 0.12 0.03
Matches are distributed among these distances:
719 148 0.27
720 15 0.03
721 18 0.03
722 358 0.66
723 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (719 bp):
AAAAGAGTTTGATTTAAAAAAATTTACAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTT
CGAACGCATGAGTGACTATAAATAGACTTTTCTTGTCAATGATGGCATCCACTTTACATTTCTTG
ATTCAAACATCCATTTATGATCGATTTATCCAAAATGAAAAAGAGTTTGATTTAAAAAATCTACA
AGATTATAAAACCATTTAAAGCAAATAACAAGGCTTTCAAAGGCATGAGTGACTATAAATAAACT
TTTCTTGTCAATGGATGGCTTTTGCTTCACATTTCCTAAAGCAAACATCCAATTATGATCTGTTT
TAACCAAAAACAAAAAAGATGTTGATTTGAAATCATTTATAAAATTATAAAACCATTTAAAGCAA
GTCACAAGGCTTTCAAATGCATGAATGACTACAAATGGACTTTCCTTACCAATGGATGGCATCCA
CTTCATGTTTCCCAATGCAAACAAGCAATTATGCAATGATTTAACCAAAAATGAAAAAGATTTCA
ACTTAAAAGCATTTATAAGATTATAAAACCATTTAAACTAAGTAACAAGGCTTTCAAAGGAACGA
GTGTCTATAAATGGACTTGTCTTATCAATGCATGGCATCTGCTTAACATTTCACAATAAAAAAAT
CAAATTATGACCGATTTTAACCAAAAATGAATCAAACATCCATTTATGATCAATTTTATCCAAAA
ATGA
Found at i:12178059 original size:341 final size:340
Alignment explanation
Indices: 12176767--12178870 Score: 1404
Period size: 341 Copynumber: 6.1 Consensus size: 340
12176757 AAAAGAGTTT
** * * * * **
12176767 GATTTAAAAAAATTTACAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTTGAACGCATG
1 GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACTAGGCTTTCGATGGCATG
* * * * * * * ** *
12176832 AGTGACTATAAATAGACTTATT-TTGTCAAT-GATGGC-ATTCGCTTTACATTTCTTGATTCAAA
66 AATGACTATAAATGGACTT-TTCTTCTCAATGGAT-GCTATCCACTTCACTTTTC-CAATGCAAA
* * * * ** *
12176894 CATCCATTTGTGATCGATTTAT-CCAAAAATGAAAAAGAGTTTTGATTTAAAAAAATTTACAAGA
128 CATCAAATTATGATCGATTTTTACCAAAAATGAAAAAGA-TTTTGATTTAAAATCATTTATAAGA
* * * * *
12176958 TTATAAAACCATTTAAAGCAAATAACAAGGCTTTCAAAGGCATGAGTGACTATAAATGGACTTTT
192 TTATAAAACCATTTAAAGGAATTAACAA-GATTTCGAAGGCATCAGTGACTATAAATGGACTTTT
* * * * * * * *
12177023 CTTGTCAATGGATGGCTTTTGCTTCACATTTTCTAAAGCAAACATCCAATTATGATCTGTTTTAA
256 CTTATCAATGGATGGCATCTGCTTCACGTTTCCCAATGCAAACATCCAAATATGATCTGTTTTAA
*
12177088 CCAAAAACAAAA-AAGATTTT
321 CCAAAAACAAAAGAA-ATTTC
* * * * * *
12177108 GATTTGAAATCATTTGTAAGATTATAAAACCATTTTAAGCGAGTCATTAGGCTTTCGATGGCATG
1 GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACTAGGCTTTCGATGGCATG
* * * * * *
12177173 AATGAGTACAAATGGACTTTCCTTAC-CAATGGATGGTATCCACTTCATTTTTCCCGATGCAAAC
66 AATGACTATAAATGGACTTTTCTT-CTCAATGGATGCTATCCACTTCACTTTT-CCAATGCAAAC
* * * * *
12177237 ATCAATTTATGAAT-GAATTTAACCAAAAATGAAAAAGATTTTGATTTAAAAGCCTTTATAAGAT
129 ATCAAATTATG-ATCGATTTTTACCAAAAATGAAAAAGATTTTGATTTAAAATCATTTATAAGAT
* ** * * * * *
12177301 TATAAAGCCATTTAAACTAAGTAACCAAGCTTTCGAA-G-ATACGAGTGATTGTAAATGGACTTG
193 TATAAAACCATTTAAAGGAATTAA-CAAGATTTCGAAGGCAT-C-AGTGACTATAAATGGACTTT
* * * * * ** ** * *
12177364 TCTTCTCAATGCATGGCATGTGTTTCATGTTTCTTAATGGTAACATACAAATATGACCTGTTTTA
255 TCTTATCAATGGATGGCATCTGCTTCACGTTTCCCAATGCAAACATCCAAATATGATCTGTTTTA
12177429 ACCAAAAAC--AAGAAATTTC
320 ACCAAAAACAAAAGAAATTTC
* * *
12177448 GATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATG
1 GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACTAGGCTTTCGATGGCATG
* * * * ** *** * * * *
12177513 AGTGAATATAGATAGACTTTTCTTGGCAAT-GATCGCT-TTTGCTTCACATTTCTAGATGCATAT
66 AATGACTATAAATGGACTTTTCTTCTCAATGGAT-GCTATCCACTTCACTTTTCCA-ATGCAAAC
* ** *
12177576 ATCCAATTATGAT--ATATTTTAATAAAAATGAAAAAGATTTTGATTTAAAATCATTTA-AATAT
129 ATCAAATTATGATCGAT-TTTTACCAAAAATGAAAAAGATTTTGATTTAAAATCATTTATAAGAT
* * * * *
12177638 TATAAAACCATTTAAAGTG-GTTAACAAGACATTCGAAGGTATGAGTGACTATAAATGAACTTTT
193 TATAAAACCATTTAAAG-GAATTAACAAGA-TTTCGAAGGCATCAGTGACTATAAATGGACTTTT
* * *
12177702 CTTATCAATGGATGGCATCCT-CTTCACGTTACCCAATGCAAACATGCAAATATGATTTGTTTTA
256 CTTATCAATGGATGGCAT-CTGCTTCACGTTTCCCAATGCAAACATCCAAATATGATCTGTTTTA
12177766 ACCAAAAACAAAAGAAATTTC
320 ACCAAAAACAAAAGAAATTTC
* * ** * * *
12177787 GATTTAAAATCATTTATATGATTATAAAACCATTTAAAACAAGTAACTAGAATTTTGATTGCATA
1 GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACTAGGCTTTCGATGGCATG
* * * * *
12177852 AATGACTATAAATGGACATTTCTTCTTAATGGATAGCT-TTCACTTCACGTTTCCAATGTAAACA
66 AATGACTATAAATGGACTTTTCTTCTCAATGGAT-GCTATCCACTTCACTTTTCCAATGCAAACA
* **
12177916 TCAAATTATGTTCGATTTTTACCAAAAATGAAAAAGATTTCAATTTAAAATCATTTATAAGATTA
130 TCAAATTATGATCGATTTTTACCAAAAATGAAAAAGATTTTGATTTAAAATCATTTATAAGATTA
* * *
12177981 TAAAACTATTAAAAGGGATTAACAATGATTTCGAAGGCATCAGTGACTATAAATGGACTTTTCTT
195 TAAAACCATTTAAAGGAATTAACAA-GATTTCGAAGGCATCAGTGACTATAAATGGACTTTTCTT
* * * *
12178046 ATCAATTGATGGCATCTGCTTCATGTTTCCCAATGCGAACATCCAATTATGATC-GATTTTAACC
259 ATCAATGGATGGCATCTGCTTCACGTTTCCCAATGCAAACATCCAAATATGATCTG-TTTTAACC
**
12178110 AATAATGGAAAAG--ATTTC
323 AA-AA-ACAAAAGAAATTTC
* * * * * * * * **
12178128 GCTTTAAAACCATTTATAAGATTACAAAACCCTTTAATGCGAGTAACTAGGTTTTTGACTATC-T
1 GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACTAGGCTTTCGA-TGGCAT
* * * * *
12178192 GAGTGACTGTAAAAGGACTTTTC-TCATCAATGGATGATATCCACTTCACTTTTCTCAATGCAAG
65 GAATGACTATAAATGGACTTTTCTTC-TCAATGGATGCTATCCACTTCACTTTTC-CAATGCAAA
* * * * **
12178256 CATCCAATT-TAGATCAATTTTAACTAAAAATGAAAAA-ATATTCAATTTAAAATCATTTATAAG
128 CATCAAATTAT-GATCGATTTTTACCAAAAATGAAAAAGAT-TTTGATTTAAAATCATTTATAAG
* ** *
12178319 ATTATAAAACCTTTTAAAGCGAGTAACAAGGCTTTCAAAGCCATGAGTAACAAGGCTTTTAAAGC
191 ATTATAAAACCATTTAAA--G-G----AA----TT--AA--CA--AG-----A---TTTCGAAGG
* * * * * * * * *
12178384 CATGAGTAACAATAAATTGACTTTTCTTATCAATGGATGGCTTTTCCTTCACGTTTCTCAATGTA
231 CATCAGTGACTATAAATGGACTTTTCTTATCAATGGATGGCATCTGCTTCACGTTTCCCAATGCA
* * * * * * * *
12178449 AAAATTCAATTATGATATATTTTAA-TAAAAATTGAAAATG--ATTTT
296 AACATCCAAATATGATCTGTTTTAACCAAAAA--CAAAA-GAAATTTC
* ** * * *
12178494 GATTTAAAATCATTTATAA-ATTATAAAGCCAAGTAAAGCAAGTAACAAGACTTTCGAAGGCAT-
1 GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACTAGGCTTTCGATGGCATG
* * * * ** * **
12178557 AAGTGACTATAAATGAACTTTTCTTATCAATGGTTGCCAT-TGCTTCACGTTTCTTGATGCAAAC
66 AA-TGACTATAAATGGACTTTTCTTCTCAATGGATGCTATCCACTTCACTTTTC-CAATGCAAAC
* * * ** * * *
12178621 GTCCAATTATAATAAATTTTAACCAAAAA-GCAAAAAGATTTTAATTTAAAATCATTTATAA-AG
129 ATCAAATTATGATCGATTTTTACCAAAAATG-AAAAAGATTTTGATTTAAAATCATTTATAAGAT
* * * * * * * *
12178684 TACAAAACCATTTAAAGCAAGTAACCAGGCTTTC-AATAGCATGAGTGACTATAAATGGATTTTT
193 TATAAAACCATTTAAAGGAATTAA-CAAGATTTCGAA-GGCATCAGTGACTATAAATGGACTTTT
* * * * * * * ** * * * *
12178748 CTTTTTAATGGATGACATTTACTTCTCATTT-CCAGATATAAACATCCAATTCTGAT-AGCTTTG
256 CTTATCAATGGATGGCATCTGCTTCACGTTTCCCA-ATGCAAACATCCAAATATGATCTG-TTTT
* * *
12178811 AACAAAAAATGAAAA-AGATTTC
319 AACCAAAAA-CAAAAGAAATTTC
* *
12178833 GATTTGAAATAATTTATAAGATTATAAAACCATTTAAA
1 GATTTAAAATCATTTATAAGATTATAAAACCATTTAAA
12178871 ACTAAGCTTT
Statistics
Matches: 1387, Mismatches: 296, Indels: 161
0.75 0.16 0.09
Matches are distributed among these distances:
336 4 0.00
337 104 0.07
338 45 0.03
339 229 0.17
340 173 0.12
341 287 0.21
342 241 0.17
343 27 0.02
344 1 0.00
345 1 0.00
347 1 0.00
349 4 0.00
350 2 0.00
352 1 0.00
353 2 0.00
355 2 0.00
356 2 0.00
357 2 0.00
358 1 0.00
359 1 0.00
361 1 0.00
363 17 0.01
364 71 0.05
365 66 0.05
366 102 0.07
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (340 bp):
GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCAAGTAACTAGGCTTTCGATGGCATG
AATGACTATAAATGGACTTTTCTTCTCAATGGATGCTATCCACTTCACTTTTCCAATGCAAACAT
CAAATTATGATCGATTTTTACCAAAAATGAAAAAGATTTTGATTTAAAATCATTTATAAGATTAT
AAAACCATTTAAAGGAATTAACAAGATTTCGAAGGCATCAGTGACTATAAATGGACTTTTCTTAT
CAATGGATGGCATCTGCTTCACGTTTCCCAATGCAAACATCCAAATATGATCTGTTTTAACCAAA
AACAAAAGAAATTTC
Found at i:12178353 original size:21 final size:22
Alignment explanation
Indices: 12178329--12178395 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 22
12178319 ATTATAAAAC
12178329 CTTTTAAAGC-GAGTAACAAGG
1 CTTTTAAAGCAGAGTAACAAGG
*
12178350 CTTTCAAAGCCATGAGTAACAAGG
1 CTTTTAAAG-CA-GAGTAACAAGG
12178374 CTTTTAAAGCCATGAGTAACAA
1 CTTTTAAAG-CA-GAGTAACAA
12178396 TAAATTGACT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.20
22 1 0.02
24 32 0.78
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (22 bp):
CTTTTAAAGCAGAGTAACAAGG
Found at i:12178371 original size:24 final size:24
Alignment explanation
Indices: 12178339--12178395 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
12178329 CTTTTAAAGC
12178339 GAGTAACAAGGCTTTCAAAGCCAT
1 GAGTAACAAGGCTTTCAAAGCCAT
*
12178363 GAGTAACAAGGCTTTTAAAGCCAT
1 GAGTAACAAGGCTTTCAAAGCCAT
12178387 GAGTAACAA
1 GAGTAACAA
12178396 TAAATTGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (24 bp):
GAGTAACAAGGCTTTCAAAGCCAT
Found at i:12178670 original size:169 final size:168
Alignment explanation
Indices: 12178364--12178761 Score: 408
Period size: 169 Copynumber: 2.3 Consensus size: 168
12178354 CAAAGCCATG
* * * * * **
12178364 AGTAACAAGGCTTTTAA-AGCCATGAGTAACAATAAATTGACTTTTCTTATCAATGGATGGCTTT
1 AGTAACAAGACTTTCAATAG-CATAAGTGACTATAAA-TGACTTTTCTTATCAATGGATGGCCAT
* * * * * *
12178428 TCCTTCACGTTTCTCAATGTAAAAATTCAATTATGATATATTTTAATAAAAATTGAAAATGATTT
64 TCCTTCACGTTTCTCAATGCAAAAATCCAATTATAATAAATTTTAACAAAAA-TGAAAAAGATTT
* * * *
12178493 TGATTTAAAATCATTTATAAATTATAAAGCCAAGTAAAGCA
128 TAATTTAAAATCATTTATAAAGTACAAAACCAAGTAAAGCA
* *
12178534 AGTAACAAGACTTTCGAA-GGCATAAGTGACTATAAATGAACTTTTCTTATCAATGG-TTGCCAT
1 AGTAACAAGACTTTC-AATAGCATAAGTGACTATAAATG-ACTTTTCTTATCAATGGATGGCCAT
* ** **
12178597 TGCTTCACGTTTCTTGATGCAAACGTCCAATTATAATAAATTTTAACCAAAAA-GCAAAAAGATT
64 TCCTTCACGTTTCTCAATGCAAAAATCCAATTATAATAAATTTTAA-CAAAAATG-AAAAAGATT
**
12178661 TTAATTTAAAATCATTTATAAAGTACAAAACCATTTAAAGCA
127 TTAATTTAAAATCATTTATAAAGTACAAAACCAAGTAAAGCA
* * * * * *
12178703 AGTAACCAGGCTTTCAATAGCATGAGTGACTATAAATGGATTTTTCTTTTTAATGGATG
1 AGTAACAAGACTTTCAATAGCATAAGTGACTATAAAT-GACTTTTCTTATCAATGGATG
12178762 ACATTTACTT
Statistics
Matches: 187, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
168 3 0.02
169 131 0.70
170 50 0.27
171 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (168 bp):
AGTAACAAGACTTTCAATAGCATAAGTGACTATAAATGACTTTTCTTATCAATGGATGGCCATTC
CTTCACGTTTCTCAATGCAAAAATCCAATTATAATAAATTTTAACAAAAATGAAAAAGATTTTAA
TTTAAAATCATTTATAAAGTACAAAACCAAGTAAAGCA
Found at i:12186397 original size:38 final size:39
Alignment explanation
Indices: 12186280--12186423 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 39
12186270 GGTCGTGACA
*
12186280 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
1 TGTGCATCCCCCCACATCGTG-ACATAGCTGGAGTCATCG
12186320 TGTGCATCCCCCCACATCGTCGACATAGCTGGAGTCATCG
1 TGTGCATCCCCCCACATCGT-GACATAGCTGGAGTCATCG
** *
12186360 TGTGCATCCCCCCACATCGTG-CATAG-TTAATGCCATCG
1 TGTGCATCCCCCCACATCGTGACATAGCTGGA-GTCATCG
**
12186398 TGTGCATCCCCTAACATCGTGCACAT
1 TGTGCATCCCCCCACATCGTG-ACAT
12186424 GGGTAGTATC
Statistics
Matches: 94, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
37 2 0.02
38 30 0.32
39 1 0.01
40 60 0.64
41 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGACATAGCTGGAGTCATCG
Found at i:12188488 original size:39 final size:39
Alignment explanation
Indices: 12188436--12188608 Score: 256
Period size: 39 Copynumber: 4.4 Consensus size: 39
12188426 GCTAATATCC
* ** *
12188436 TCATGTGCACTCCCACACAACACATGGCATACATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
*
12188475 TCATGTGCTCTCCCACACCGCACATGGCATATTTCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
*
12188514 TCATGTGCTCTCCCACACTGCACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* *
12188553 TCATGTGCTTTTCCACACCGCACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
**
12188592 TTGTGTGCTCTCCCACA
1 TCATGTGCTCTCCCACA
12188609 TCGTACACTA
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.25, C:0.34, G:0.13, T:0.28
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
Found at i:12189502 original size:5 final size:5
Alignment explanation
Indices: 12189492--12189568 Score: 75
Period size: 5 Copynumber: 15.4 Consensus size: 5
12189482 AGGAAGAAGT
* * * * *
12189492 AAGAA AAGAA AGGAA AGGAA AAGAA AATAA AAGAA AGGAA AGGAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
* *
12189542 AATAA AAG-A AAGGA AAGAA AATGAA AA
1 AAGAA AAGAA AAGAA AAGAA AA-GAA AA
12189569 TTTTGATTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
4 4 0.07
5 52 0.85
6 5 0.08
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (5 bp):
AAGAA
Found at i:12189515 original size:20 final size:20
Alignment explanation
Indices: 12189494--12189567 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
12189484 GAAGAAGTAA
* *
12189494 GAAAAGAAAGGAAAGGAAAA
1 GAAAAGAAAAGAAAGGAAAG
*
12189514 GAAAATAAAAGAAAGGAAAG
1 GAAAAGAAAAGAAAGGAAAG
* *
12189534 GAAAAGAAAATAAAAGAAAG
1 GAAAAGAAAAGAAAGGAAAG
12189554 G-AAAGAAAATGAAA
1 GAAAAGAAAA-GAAA
12189568 ATTTTGATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
19 8 0.17
20 38 0.83
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (20 bp):
GAAAAGAAAAGAAAGGAAAG
Found at i:12189523 original size:25 final size:25
Alignment explanation
Indices: 12189495--12189569 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
12189485 AAGAAGTAAG
12189495 AAAAGAAAGGAAAGGAAAAGAAAAT
1 AAAAGAAAGGAAAGGAAAAGAAAAT
12189520 AAAAGAAAGGAAAGGAAAAGAAAAT
1 AAAAGAAAGGAAAGGAAAAGAAAAT
12189545 AAAAGAAAGGAAA-GAAAATGAAAAT
1 AAAAGAAAGGAAAGGAAAA-GAAAAT
12189570 TTTGATTTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.10
25 44 0.90
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (25 bp):
AAAAGAAAGGAAAGGAAAAGAAAAT
Found at i:12193907 original size:35 final size:35
Alignment explanation
Indices: 12193836--12193909 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
12193826 CTCCCCCAGC
* *
12193836 TCATGTGCACTCCCACACCACACATAGCTAGGTCA
1 TCATGTGCACTCCCACACCACACATAGCAAGATCA
* * *
12193871 TCATGTGCACTCCTACACCGCACATTA-CAATATCA
1 TCATGTGCACTCCCACACCACACA-TAGCAAGATCA
12193906 TCAT
1 TCAT
12193910 CAACATCATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 31 0.94
36 2 0.06
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCACACATAGCAAGATCA
Found at i:12197815 original size:38 final size:40
Alignment explanation
Indices: 12197773--12197875 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 40
12197763 ATAGTGCCCG
*
12197773 TGTGCACAATGTGGGGGGATGTACACGAT-G-G-CA-CTGA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCAGCT-A
*
12197810 TTGTGCACGATGTGGGGGGATGCACACGATGGTGCCAGCTA
1 -TGTGCACGATGTGGGGGGATGTACACGATGGTGCCAGCTA
*
12197851 TGTGCATGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
12197876 TGAGCCGGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 27 0.47
39 1 0.02
40 24 0.42
41 3 0.05
42 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCAGCTA
Found at i:12199219 original size:42 final size:42
Alignment explanation
Indices: 12199159--12199274 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 42
12199149 GGTCGTGACA
* *
12199159 CACTCCCCACTCGCACATAGCTGGGTCATCATCAGCTCATGTG
1 CACT-CCCACACGCACATAGCTGGGTCATCATCAGCTCATATG
*
12199202 CACT-CCACACCGCACATAGTTGGGTCATCATCAGCTCATATG
1 CACTCCCACA-CGCACATAGCTGGGTCATCATCAGCTCATATG
*
12199244 CACTCCCACAAGCACATAGCTGGGTCATCAT
1 CACTCCCACACGCACATAGCTGGGTCATCAT
12199275 TATCACATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
41 4 0.06
42 53 0.80
43 9 0.14
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.22
Consensus pattern (42 bp):
CACTCCCACACGCACATAGCTGGGTCATCATCAGCTCATATG
Found at i:12201986 original size:43 final size:43
Alignment explanation
Indices: 12201898--12202032 Score: 209
Period size: 43 Copynumber: 3.2 Consensus size: 43
12201888 TTATGTGATA
* * * * * *
12201898 ATGATGACCCCGCTATGTGAGTGT-GGGAGTGCACATGAGCTG
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
12201940 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
12201983 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
12202026 ATGATGA
1 ATGATGA
12202033 TGACCCAGCT
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
42 21 0.24
43 65 0.76
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (43 bp):
ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
Found at i:12205749 original size:43 final size:43
Alignment explanation
Indices: 12205688--12205806 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
12205678 GTAATTATAT
* * *
12205688 TGACTCGACTATGTGCGAGTAGGGAGTGCGCATAAGCTGAGGA
1 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
* * *
12205731 TGACTCGGTTATGTGCGAGTAGAGAGTGCGCATAACCCGATGA
1 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
* * * *
12205774 TGACCCAGCCATGTGCGTGTAGGGAGTGCGCAT
1 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCAT
12205807 GAGTTGGTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (43 bp):
TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
Found at i:12206245 original size:39 final size:39
Alignment explanation
Indices: 12206175--12206268 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
12206165 CTATAACTTA
* * * *
12206175 TCGCTGCAGCGAGAAACTTTCTGTTTTTGGG-TAGCAATT
1 TCGCTGTAGCGAGAAACCTTCTATTTCTGGGTTA-CAATT
*
12206214 TTGCTGTAGCGAGAAACCTTCTATTTCTGGGTTACAATT
1 TCGCTGTAGCGAGAAACCTTCTATTTCTGGGTTACAATT
*
12206253 TCGCCGTAGCGAGAAA
1 TCGCTGTAGCGAGAAA
12206269 GAATATCGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 45 0.96
40 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (39 bp):
TCGCTGTAGCGAGAAACCTTCTATTTCTGGGTTACAATT
Found at i:12208068 original size:34 final size:34
Alignment explanation
Indices: 12207995--12208068 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
12207985 TTTGGCTGCT
* *
12207995 GAAAATTTGAGCTGTTTGTTGCGAATTTGTGCAA
1 GAAAATTAGAGCTGTTTGCTGCGAATTTGTGCAA
* * *
12208029 AAAAATTAGAGCTGTTTGCTG-GTAGTTTGTGCAG
1 GAAAATTAGAGCTGTTTGCTGCG-AATTTGTGCAA
12208063 GAAAAT
1 GAAAAT
12208069 AGGACAGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (34 bp):
GAAAATTAGAGCTGTTTGCTGCGAATTTGTGCAA
Found at i:12208334 original size:25 final size:25
Alignment explanation
Indices: 12208296--12208355 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
12208286 GAAAAAGAAA
12208296 AGAAAATAAATGGGCATGACCCAAT
1 AGAAAATAAATGGGCATGACCCAAT
* * *
12208321 AGAAAATAAGTGGGCATGGCCTAAT
1 AGAAAATAAATGGGCATGACCCAAT
*
12208346 AGGAAATAAA
1 AGAAAATAAA
12208356 AATAAATAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.23, T:0.17
Consensus pattern (25 bp):
AGAAAATAAATGGGCATGACCCAAT
Found at i:12211417 original size:19 final size:19
Alignment explanation
Indices: 12211393--12211432 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12211383 GCTCAAATTA
12211393 TCAACTGACCGAGGGTTTC
1 TCAACTGACCGAGGGTTTC
*
12211412 TCAACTGGCCGAGGGTTTC
1 TCAACTGACCGAGGGTTTC
12211431 TC
1 TC
12211433 TTCAAACCTC
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:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (19 bp):
TCAACTGACCGAGGGTTTC
Found at i:12211971 original size:42 final size:42
Alignment explanation
Indices: 12211886--12211995 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
12211876 CCATCCCACG
* *
12211886 ATCATCAGCTCATGTGCACTCCCCACTCCCACAAAGCTGGGTC
1 ATCATCAGCTCATGTGCACT-CCCACTCACACAAAGCTAGGTC
**
12211929 ATCATCAGCTCATGTGCACTCCCACTCACACATGGCTAGGTC
1 ATCATCAGCTCATGTGCACTCCCACTCACACAAAGCTAGGTC
12211971 ATCATCAGCTCATGTGCACTCCCAC
1 ATCATCAGCTCATGTGCACTCCCAC
12211996 ATGCATGTAG
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 43 0.68
43 20 0.32
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (42 bp):
ATCATCAGCTCATGTGCACTCCCACTCACACAAAGCTAGGTC
Found at i:12212013 original size:42 final size:42
Alignment explanation
Indices: 12211886--12212019 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
12211876 CCATCCCACG
* *
12211886 ATCATCAGCTCATGTGCACTCCCCACTCCCACA-AAGCTGGGTC
1 ATCATCAGCTCATGTGCACT-CCCAC-CACACATGAGCTGGGTC
*
12211929 ATCATCAGCTCATGTGCACTCCCACTCACACATG-GCTAGGTC
1 ATCATCAGCTCATGTGCACTCCCAC-CACACATGAGCTGGGTC
**
12211971 ATCATCAGCTCATGTGCACTCCCA-CATGCATGTAGCTGGGTC
1 ATCATCAGCTCATGTGCACTCCCACCACACATG-AGCTGGGTC
12212013 ATCATCA
1 ATCATCA
12212020 TCACACAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
40 6 0.07
42 56 0.68
43 20 0.24
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (42 bp):
ATCATCAGCTCATGTGCACTCCCACCACACATGAGCTGGGTC
Found at i:12214005 original size:21 final size:21
Alignment explanation
Indices: 12213976--12214024 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
12213966 TAGAAGAAAT
12213976 AAAACTAAATTGCAT-TGTTTTC
1 AAAA-TAAA-TGCATCTGTTTTC
12213998 AAAATAAATGCATCGTGTTTTC
1 AAAATAAATGCATC-TGTTTTC
12214020 AAAAT
1 AAAAT
12214025 CTTTCCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.20
21 4 0.16
22 16 0.64
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAATAAATGCATCTGTTTTC
Found at i:12218217 original size:42 final size:42
Alignment explanation
Indices: 12218168--12218257 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
12218158 GCACATGGCT
**
12218168 GGGTCATCATTGGCTTATGCGCACTCCTACTCGCACATAACC
1 GGGTCATCATCAGCTTATGCGCACTCCTACTCGCACATAACC
* * *
12218210 GGGTCATCATCAGCTTATGTGCACTCCTACTCGCACATAGCT
1 GGGTCATCATCAGCTTATGCGCACTCCTACTCGCACATAACC
12218252 GGGTCA
1 GGGTCA
12218258 ATATCCTTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (42 bp):
GGGTCATCATCAGCTTATGCGCACTCCTACTCGCACATAACC
Found at i:12224582 original size:20 final size:21
Alignment explanation
Indices: 12224546--12224587 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
12224536 AGAGAAAGGC
*
12224546 AGAAAGAAGAAATGAAG-GAA
1 AGAAAGAAGAAAGGAAGAGAA
12224566 AGAAAGGAA-AAAGGAAGAGAA
1 AGAAA-GAAGAAAGGAAGAGAA
12224587 A
1 A
12224588 AGCTCGGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (21 bp):
AGAAAGAAGAAAGGAAGAGAA
Found at i:12225852 original size:36 final size:39
Alignment explanation
Indices: 12225728--12225860 Score: 146
Period size: 39 Copynumber: 3.5 Consensus size: 39
12225718 GTAGTGTGTT
** ** *
12225728 GTGTGGGAAAGCACATGCCAATGATATATGCCATGTGCG
1 GTGTGGGAGTGCACATGAGAATTATATATGCCATGTGCG
* *
12225767 GTGTGGGAGAGCACATGATAATTATATATGCCATGTGCG
1 GTGTGGGAGTGCACATGAGAATTATATATGCCATGTGCG
* * *
12225806 GCGTGGGAGTGCACATGAGGA-TAT-TA-GCTATGTGCG
1 GTGTGGGAGTGCACATGAGAATTATATATGCCATGTGCG
*
12225842 GTGTGCGAGTGCACATGAG
1 GTGTGGGAGTGCACATGAG
12225861 CTGAGTTGAG
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
36 26 0.31
37 2 0.02
38 3 0.04
39 52 0.63
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.25
Consensus pattern (39 bp):
GTGTGGGAGTGCACATGAGAATTATATATGCCATGTGCG
Found at i:12226720 original size:57 final size:57
Alignment explanation
Indices: 12226617--12226733 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 57
12226607 CTGTGACAAA
* *
12226617 TTGCATGCATAGCATTTATTAAATCACATAAAATAAATCTATCACATGCATACTACT
1 TTGCATGCATAGCATTTATTAAATCACATAAAATAAATCTAACACATGCAAACTACT
** *
12226674 TTGCATTGCATAGCATTTATTAAATTGCAT-AAATAAATTTAACACATGCAAACTACT
1 TTGCA-TGCATAGCATTTATTAAATCACATAAAATAAATCTAACACATGCAAACTACT
12226731 TTG
1 TTG
12226734 GATGATTGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 32 0.59
58 22 0.41
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (57 bp):
TTGCATGCATAGCATTTATTAAATCACATAAAATAAATCTAACACATGCAAACTACT
Found at i:12230246 original size:43 final size:43
Alignment explanation
Indices: 12230176--12230294 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
12230166 GTAATGACAT
* * * *
12230176 TGACTCGGCTATGTGTGAGTAGGGAGTGCGCATAATCTGAGGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
* *
12230219 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
** * *
12230262 TGACCCAACCATGTGCGAGTATGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
12230295 GAGCTGGTGA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGA
Found at i:12232912 original size:43 final size:43
Alignment explanation
Indices: 12232856--12232940 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
12232846 GTGATAATGA
* *
12232856 TGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGC
1 TGACCCAGATATGTGCAGTGTGGGAGTGCACATGAGCTGATGC
*
12232899 TGACCCAGATATGTGCAGTGTGGGAGTGCACATGAGTTGATG
1 TGACCCAGATATGTGCAGTGTGGGAGTGCACATGAGCTGATG
12232941 ATGATGATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (43 bp):
TGACCCAGATATGTGCAGTGTGGGAGTGCACATGAGCTGATGC
Found at i:12258114 original size:47 final size:47
Alignment explanation
Indices: 12258042--12258158 Score: 216
Period size: 47 Copynumber: 2.5 Consensus size: 47
12258032 ACATGTTAGG
* *
12258042 AATTTTGAGAATATGGTGCCTTAGAAAGCAAGTATATTCTCATGCTA
1 AATTTTGAGAATATGGTGCCCTAGAAAGCAAGTATATTCTCATGATA
12258089 AATTTTGAGAATATGGTGCCCTAGAAAGCAAGTATATTCTCATGATA
1 AATTTTGAGAATATGGTGCCCTAGAAAGCAAGTATATTCTCATGATA
12258136 AATTTTGAGAATATGGTGCCCTA
1 AATTTTGAGAATATGGTGCCCTA
12258159 TATGCTTAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (47 bp):
AATTTTGAGAATATGGTGCCCTAGAAAGCAAGTATATTCTCATGATA
Found at i:12259547 original size:17 final size:17
Alignment explanation
Indices: 12259525--12259557 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12259515 ATAATAATAA
12259525 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
12259542 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
12259558 TTATTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:12262137 original size:2 final size:2
Alignment explanation
Indices: 12262130--12262176 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
12262120 NNNNNNNNNN
12262130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12262172 AT AT A
1 AT AT A
12262177 CACACATCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12262290 original size:42 final size:43
Alignment explanation
Indices: 12262204--12262296 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
12262194 ATCATCCCAC
* * *
12262204 CATCATCAACTCATGTGCACTCCCCACTCGCACATAGCTAGGT
1 CATCATCAACTCATGTGCACTCCCCACACGCACATAACCAGGT
* *
12262247 CATCATCAGCTCATGTGCACT-CCCACACGCACATAACCGGGT
1 CATCATCAACTCATGTGCACTCCCCACACGCACATAACCAGGT
12262289 CATCATCA
1 CATCATCA
12262297 TCACACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.27, C:0.38, G:0.14, T:0.22
Consensus pattern (43 bp):
CATCATCAACTCATGTGCACTCCCCACACGCACATAACCAGGT
Found at i:12271334 original size:35 final size:35
Alignment explanation
Indices: 12271308--12271527 Score: 221
Period size: 35 Copynumber: 6.3 Consensus size: 35
12271298 TTAATTGTTT
*
12271308 AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *** * * *
12271343 AATTTAATTAATTAATACTAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* ***
12271378 AATTTTAATCAATTAGGCCCAATGACTTAATTATTT
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
12271414 AATTTAATTAAATAGGCCCATTGACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
12271449 AATTTAATTAATTAGGCCCAATGATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
*
12271484 AATTTAATCAATTAGG---TATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
12271516 AATTTTAATCAA
1 AA-TTTAATCAA
12271528 GTGCTCATAA
Statistics
Matches: 151, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
32 15 0.10
33 9 0.06
35 103 0.68
36 24 0.16
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.38
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:12271391 original size:71 final size:69
Alignment explanation
Indices: 12271310--12271527 Score: 237
Period size: 71 Copynumber: 3.1 Consensus size: 69
12271300 AATTGTTTAA
* * *
12271310 TTTAATCAATTAGGCTCAATAACTTAATTAAACAATTTAATTAATTAATACTAACAATTTAATTA
1 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGTACTAAC-A-TTAATTA
12271375 AACAAT
64 AACAAT
*** * * * *
12271381 TTTAATCAATTAGGCCCAATGACTTAATTATTTAATTTAATTAAATAGGCCCATTGAC-TTAATT
1 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTA-G--TACTAACATTAATT
12271445 AAACAA-
63 AAACAAT
* * *
12271451 TTTAATTAATTAGGCCCAATGATTTAATTAAACAATTTAATCAATTAGGTA-TAAC-TTAATTAA
1 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTA-GTACTAACATTAATTAA
12271514 ACAAT
65 ACAAT
12271519 TTTAATCAA
1 TTTAATCAA
12271528 GTGCTCATAA
Statistics
Matches: 123, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
67 15 0.12
68 9 0.07
70 42 0.34
71 53 0.43
74 4 0.03
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (69 bp):
TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGTACTAACATTAATTAAA
CAAT
Found at i:12271415 original size:106 final size:105
Alignment explanation
Indices: 12271296--12271499 Score: 291
Period size: 106 Copynumber: 1.9 Consensus size: 105
12271286 AGCTTAGATA
* * * *
12271296 ACTTAATTGTTTAATTTAATCAATTAGGCTCAATAACTTAATTAAACAATTTAATTAATTAATAC
1 ACTTAATTATTTAATTTAATCAAATAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGAC
*
12271361 TAACAATTTAATTAAACAATTTTAATCAATTAGGCCCAATG
66 CAACAATTTAATTAAACAA-TTTAATCAATTAGGCCCAATG
* * * * *
12271402 ACTTAATTATTTAATTTAATTAAATAGGCCCATTGACTTAATTAAACAATTTAATTAATTAGGCC
1 ACTTAATTATTTAATTTAATCAAATAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGAC
**
12271467 CAATGATTTAATTAAACAATTTAATCAATTAGG
66 CAACAATTTAATTAAACAATTTAATCAATTAGG
12271500 TATAACTTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
105 14 0.16
106 72 0.84
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (105 bp):
ACTTAATTATTTAATTTAATCAAATAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGAC
CAACAATTTAATTAAACAATTTAATCAATTAGGCCCAATG
Found at i:12278286 original size:34 final size:34
Alignment explanation
Indices: 12278248--12278506 Score: 173
Period size: 34 Copynumber: 7.2 Consensus size: 34
12278238 GCACATGACA
12278248 ATGATAGTGGTGTGCTGTGTGAGTGCACACACTG
1 ATGATAGTGGTGTGCTGTGTGAGTGCACACACTG
* * * **
12278282 ATGATATATGCCTTGTGTGGTGTGGGAGTGCACATGGC-G
1 ATG--ATA-G--TGGTGTGCTGTGTGAGTGCACA-CACTG
* *
12278321 ATGATAGTGGTGTGTTGTGTGAGTGCACACACTA
1 ATGATAGTGGTGTGCTGTGTGAGTGCACACACTG
* * * *
12278355 ATGATATATGCCATGTGCAGTGTGGGAGTGCACATGAC-G
1 ATGATA-GTG--GTGTGC--TGTGTGAGTGCACA-CACTG
*
12278394 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTG
1 ATGATAGTGGTGTGCTGTGTGAGTGCACACACTG
* * * *
12278428 ATGATATATGCCATGTGCGGTGTGGGAGTGCACATGAC-G
1 ATGATA-GTG--GTGTGC--TGTGTGAGTGCACA-CACTG
* *
12278467 GTGATAGTGGTGTGTTGTGTGAGTGCACACACTG
1 ATGATAGTGGTGTGCTGTGTGAGTGCACACACTG
12278501 ATGATA
1 ATGATA
12278507 TATGCCACGT
Statistics
Matches: 170, Mismatches: 34, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
33 5 0.03
34 66 0.39
35 4 0.02
36 13 0.08
37 13 0.08
38 4 0.02
39 60 0.35
40 5 0.03
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.29
Consensus pattern (34 bp):
ATGATAGTGGTGTGCTGTGTGAGTGCACACACTG
Found at i:12278300 original size:39 final size:39
Alignment explanation
Indices: 12278255--12278512 Score: 162
Period size: 36 Copynumber: 7.0 Consensus size: 39
12278245 ACAATGATAG
12278255 TGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
1 TGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
* * * **
12278294 TTGTGTGGTGTGGGAGTG--CACA-TGGCGATGATA-G--
1 TGGTGTGCTGTGTGAGTGCACACACTGATGAT-ATATGCC
* *
12278328 TGGTGTGTTGTGTGAGTGCACACACTAATGATATATGCC
1 TGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
* * * *
12278367 --ATGTGCAGTGTGGGAGTG--CACA-TGACGGTGATA-G--
1 TGGTGTGC--TGTGTGAGTGCACACACTGATGAT-ATATGCC
12278401 TGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
1 TGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
* * * * *
12278440 AT-GTGCGGTGTGGGAGTG--CACA-TGACGGTGATA-G--
1 -TGGTGTGCTGTGTGAGTGCACACACTGATGAT-ATATGCC
*
12278474 TGGTGTGTTGTGTGAGTGCACACACTGATGATATATGCC
1 TGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
12278513 ACGTGCGATG
Statistics
Matches: 161, Mismatches: 31, Indels: 54
0.65 0.13 0.22
Matches are distributed among these distances:
33 1 0.01
34 37 0.23
36 43 0.27
37 42 0.26
39 37 0.23
40 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.35, T:0.29
Consensus pattern (39 bp):
TGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
Found at i:12278342 original size:73 final size:73
Alignment explanation
Indices: 12278222--12278541 Score: 523
Period size: 73 Copynumber: 4.4 Consensus size: 73
12278212 TGACTGTGCG
* *
12278222 TGTGCGGTGTGGAAGTGCACATGACAATGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
1 TGTGCGGTGTGGGAGTGCACATGACGATGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
*
12278287 ATATGCCT
66 ATATGCCA
* * * *
12278295 TGTGTGGTGTGGGAGTGCACATGGCGATGATAGTGGTGTGTTGTGTGAGTGCACACACTAATGAT
1 TGTGCGGTGTGGGAGTGCACATGACGATGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
12278360 ATATGCCA
66 ATATGCCA
* *
12278368 TGTGCAGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
1 TGTGCGGTGTGGGAGTGCACATGACGATGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
12278433 ATATGCCA
66 ATATGCCA
* *
12278441 TGTGCGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGTTGTGTGAGTGCACACACTGATGAT
1 TGTGCGGTGTGGGAGTGCACATGACGATGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
12278506 ATATGCCA
66 ATATGCCA
* *
12278514 CGTGCGATGTGGGAGTGCACATGACGAT
1 TGTGCGGTGTGGGAGTGCACATGACGAT
12278542 ATTGCCTTGT
Statistics
Matches: 229, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 229 1.00
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (73 bp):
TGTGCGGTGTGGGAGTGCACATGACGATGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
ATATGCCA
Found at i:12279670 original size:28 final size:27
Alignment explanation
Indices: 12279625--12279678 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
12279615 TTTCACTATC
***
12279625 TAGGGGCAAAATGGTAATTTTGCCACCT
1 TAGGGGCAAAACAATAATTTT-CCACCT
12279653 TAGGGGCAAAACAATAATTTTCCACC
1 TAGGGGCAAAACAATAATTTTCCACC
12279679 ACCAGGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGGGGCAAAACAATAATTTTCCACCT
Found at i:12284211 original size:29 final size:28
Alignment explanation
Indices: 12284164--12284307 Score: 155
Period size: 29 Copynumber: 5.0 Consensus size: 28
12284154 TGGCAGCTTT
*
12284164 AACATGTTTGTCTTAATTTAGATAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
12284192 AACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* * *
12284221 AATATGTTTGTCATAATTTAAGACAACAA
1 AACATGTTTGTCTTAATTT-AGACAAGAA
*
12284250 AA-ATAGTTTTTGTCTTAATCTAGACAAGAA
1 AACAT-G--TTTGTCTTAATTTAGACAAGAA
* * *
12284280 TACATATTTGTCTCAAATTTAGACAAGA
1 AACATGTTTGTCT-TAATTTAGACAAGA
12284308 TCAAATATTT
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
28 27 0.28
29 49 0.50
30 9 0.09
31 13 0.13
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:12284277 original size:59 final size:60
Alignment explanation
Indices: 12284167--12284328 Score: 174
Period size: 59 Copynumber: 2.7 Consensus size: 60
12284157 CAGCTTTAAC
* * * *
12284167 ATGTTTGTCTTAATTTAGATAAGAAAACAT-G-TTTGGTCTTAATTTAGACAAGAA-A-AT
1 ATGTTTGTCATAATTTAGACAAGAAAA-ATAGTTTTTGTCTTAATCTAGACAAGAATACAT
*
12284224 ATGTTTGTCATAATTTAAGACAACAAAAATAGTTTTTGTCTTAATCTAGACAAGAATACAT
1 ATGTTTGTCATAATTT-AGACAAGAAAAATAGTTTTTGTCTTAATCTAGACAAGAATACAT
* * *
12284285 AT-TTGTCTCA-AATTTAGACAAGATCAAATATTTTTTGTCTTAAT
1 ATGTT-TGTCATAATTTAGACAAGA-AAAATAGTTTTTGTCTTAAT
12284329 TACGGATAAG
Statistics
Matches: 89, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
57 17 0.19
58 10 0.11
59 28 0.31
60 26 0.29
61 8 0.09
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (60 bp):
ATGTTTGTCATAATTTAGACAAGAAAAATAGTTTTTGTCTTAATCTAGACAAGAATACAT
Found at i:12284328 original size:60 final size:59
Alignment explanation
Indices: 12284202--12284328 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 59
12284192 AACATGTTTG
* *
12284202 GTCTTAATTTAGACAAGAAAATATGTTTGTCATAATTTAAGACAACAAAAATAGTTTTT
1 GTCTTAATCTAGACAAGAAAATATGTTTCTCATAATTTAAGACAACAAAAATAGTTTTT
* * *
12284261 GTCTTAATCTAGACAAGAATACATAT-TTGTCTCA-AATTT-AGACAAGATCAAATATTTTTT
1 GTCTTAATCTAGACAAGAA-A-ATATGTT-TCTCATAATTTAAGACAACA-AAAATAGTTTTT
12284321 GTCTTAAT
1 GTCTTAAT
12284329 TACGGATAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
59 25 0.42
60 26 0.44
61 8 0.14
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (59 bp):
GTCTTAATCTAGACAAGAAAATATGTTTCTCATAATTTAAGACAACAAAAATAGTTTTT
Found at i:12285602 original size:18 final size:18
Alignment explanation
Indices: 12285560--12285610 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
12285550 GTTTTTCTTA
* *
12285560 TATTAAAAT-TATGTTAT
1 TATTAAAATATATTTTTT
*
12285577 TATAAAAATATATTTTTT
1 TATTAAAATATATTTTTT
12285595 TATTAAAATAT-TTTTT
1 TATTAAAATATATTTTT
12285611 AAAAAAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTAAAATATATTTTTT
Found at i:12285813 original size:15 final size:16
Alignment explanation
Indices: 12285790--12285832 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
12285780 GGCCACTTCC
* *
12285790 AATTTTTTTTTATAA-
1 AATTATTTTTTAAAAG
12285805 AATTA-TTTTTAAAAG
1 AATTATTTTTTAAAAG
12285820 AATTATTTTTTAA
1 AATTATTTTTTAA
12285833 GAAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 9 0.38
16 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
AATTATTTTTTAAAAG
Found at i:12288200 original size:35 final size:34
Alignment explanation
Indices: 12288139--12288272 Score: 134
Period size: 35 Copynumber: 4.0 Consensus size: 34
12288129 AGAAGTTAAG
* * ** *
12288139 TGTTG-GGTTTTGGTTGATCCCGTGAAAAAGCAT
1 TGTTGAGGTTGTGGTTGAGCCTTTGAAAAACCAT
12288172 TGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA-
1 TGTTG-AGGTTGTGGTTGAGCCTTTGAAAAACCAT
* *
12288206 CGTTG-GGTTTTGGTTGAG-CTTGTGAAAAACCAT
1 TGTTGAGGTTGTGGTTGAGCCTT-TGAAAAACCAT
12288239 TG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TGTTG--AGGTTGTGGTTGAGCCTTTGAAAAACCA
12288273 CTTTGGGTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
31 3 0.04
32 24 0.29
33 6 0.07
34 4 0.05
35 44 0.52
36 3 0.04
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (34 bp):
TGTTGAGGTTGTGGTTGAGCCTTTGAAAAACCAT
Found at i:12288217 original size:67 final size:67
Alignment explanation
Indices: 12288140--12288329 Score: 256
Period size: 67 Copynumber: 2.8 Consensus size: 67
12288130 GAAGTTAAGT
* *
12288140 GTTGGGTTTTGGTTGATCCCGTGAAAAAGCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAAC
1 GTTGGGTTTTGGTTGATCCCGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAAC
12288204 CAC
65 CAC
* **
12288207 GTTGGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
1 GTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
12288272 AC
66 AC
* * * * * * *
12288274 TTTGGGTTTTAGTTTATCCCGTGAAAAACTAGTGTAAAAGGTTTTGGTTGAGCCTT
1 GTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
12288330 GTAAAAGCCA
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 2 0.02
67 105 0.98
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (67 bp):
GTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
AC
Found at i:12309077 original size:35 final size:34
Alignment explanation
Indices: 12309038--12309147 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 34
12309028 TGATCCCGTC
*
12309038 AAAAAGCATTGTTGTAGGTTGTGGTTGAGCCTTTG
1 AAAAACCATTGTTG-AGGTTGTGGTTGAGCCTTTG
* * * **
12309073 AAAAATCA-CGTTG-GGTTTTGGTTGAGCCCGTG
1 AAAAACCATTGTTGAGGTTGTGGTTGAGCCTTTG
*
12309105 AAAAACCATT-ATGAAAGGTTGTGGTTGAGCCTTTG
1 AAAAACCATTGTTG--AGGTTGTGGTTGAGCCTTTG
12309140 AAAAACCA
1 AAAAACCA
12309148 CTTTGATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
32 25 0.42
34 4 0.07
35 31 0.52
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (34 bp):
AAAAACCATTGTTGAGGTTGTGGTTGAGCCTTTG
Found at i:12309091 original size:67 final size:67
Alignment explanation
Indices: 12309015--12309144 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 67
12309005 AAAGTTAGGT
* * * *
12309015 GTTGGGTTTTGGGTGATCCCGTCAAAAAGCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAAT
1 GTTGGGTTTTGGGTGAGCCCGTCAAAAACCATT-ATGAAAGGTTGTGGTTGAGCCTTTGAAAAAT
12309079 CAC
65 CAC
* *
12309082 GTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTATGAAAGGTTGTGGTTGAGCCTTTGAAAAA
1 GTTGGGTTTTGGGTGAGCCCGTCAAAAACCATTATGAAAGGTTGTGGTTGAGCCTTTGAAAAA
12309145 CCACTTTGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 2 0.04
67 54 0.96
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (67 bp):
GTTGGGTTTTGGGTGAGCCCGTCAAAAACCATTATGAAAGGTTGTGGTTGAGCCTTTGAAAAATC
AC
Found at i:12309095 original size:32 final size:33
Alignment explanation
Indices: 12309053--12309147 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 33
12309043 GCATTGTTGT
*
12309053 AGGTTGTGGTTGAGCCTTTGAAAAATCACGT-TG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCA-GTATG
* ** *
12309086 -GGTTTTGGTTGAGCCCGTGAAAAACCATTATG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCAGTATG
12309118 AAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 --AGGTTGTGGTTGAGCCTTTGAAAAACCA
12309148 CTTTGATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
31 1 0.02
32 25 0.50
35 24 0.48
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (33 bp):
AGGTTGTGGTTGAGCCTTTGAAAAACCAGTATG
Found at i:12309168 original size:67 final size:67
Alignment explanation
Indices: 12309053--12309204 Score: 196
Period size: 67 Copynumber: 2.3 Consensus size: 67
12309043 GCATTGTTGT
* * * * *
12309053 AGGTTGTGGTTGAGCCTTTGAAAAATCACGTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTATG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACGTTGAGTTTTAGTTGAGCCCGTGAAAAACCAGTATA
12309118 AA
66 AA
* * * * *
12309120 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGATTTTTAGTTTAGCCCGTGAAAAACTAGTGTA
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACGTTGAGTTTTAGTTGAGCCCGTGAAAAACCAGTATA
12309185 AA
66 AA
* *
12309187 AGGTTTTGATTGAGCCTT
1 AGGTTGTGGTTGAGCCTT
12309205 GTAAAAGTCA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (67 bp):
AGGTTGTGGTTGAGCCTTTGAAAAACCACGTTGAGTTTTAGTTGAGCCCGTGAAAAACCAGTATA
AA
Found at i:12309929 original size:2 final size:2
Alignment explanation
Indices: 12309922--12309950 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12309912 TATCTATAGC
12309922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12309951 CAAGCAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12310060 original size:35 final size:35
Alignment explanation
Indices: 12310021--12310088 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
12310011 AGAGTCATTG
*
12310021 TGTGCAC-CCCCACATCGTACACATCAACATCATCA
1 TGTGCACTCCCCAC-TCGCACACATCAACATCATCA
* *
12310056 TGTGCACTCCCTACTTGCACACATCAACATCAT
1 TGTGCACTCCCCACTCGCACACATCAACATCAT
12310089 TATCCACACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 24 0.83
36 5 0.17
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.24
Consensus pattern (35 bp):
TGTGCACTCCCCACTCGCACACATCAACATCATCA
Found at i:12310789 original size:42 final size:42
Alignment explanation
Indices: 12310733--12310894 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
12310723 TGTGGATCCG
* * * *
12310733 ACTATGTTCTAGTAGGAGTGTACATAAGTCGATGATGACCCA
1 ACTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
* * * *
12310775 ACTATGTGCGAGTAGGAGTACGCATAAGCCAATGATGACCCG
1 ACTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
* **
12310817 GCTATGTGCGAGCGGGAGTGCACATAAGCCGATGATGACCCA
1 ACTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
* * * *
12310859 GAC-ATGTGCTAGTGGGGAGTGCACATGAGCTGATGA
1 -ACTATGTGCGAGT-AGGAGTGCACATAAGCCGATGA
12310895 CGATGGGAGA
Statistics
Matches: 98, Mismatches: 20, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
42 77 0.79
43 21 0.21
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (42 bp):
ACTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
Found at i:12316335 original size:35 final size:35
Alignment explanation
Indices: 12316296--12316368 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
12316286 ATAGCCGGAG
*
12316296 TCATCGTGTGCAC-CCCCACATCGTACACATCAACA
1 TCATCGTGTGCACTCCCCAC-TCGGACACATCAACA
* *
12316331 TCATCGTGTGTACTCCCTACTCGGACACATCAACA
1 TCATCGTGTGCACTCCCCACTCGGACACATCAACA
12316366 TCA
1 TCA
12316369 CTATCCACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.23
Consensus pattern (35 bp):
TCATCGTGTGCACTCCCCACTCGGACACATCAACA
Found at i:12325380 original size:29 final size:30
Alignment explanation
Indices: 12325312--12325476 Score: 133
Period size: 29 Copynumber: 5.5 Consensus size: 30
12325302 CAGCGTTAAC
* *
12325312 ATGTTTGTCTTAATTTAGACAAG--TAAAC
1 ATGTTTGTCTTAATTTAGACAAGAAAAAAT
12325340 ATGTTTGTTCTTAATTTAGACAA-AAAAAAT
1 ATGTTTG-TCTTAATTTAGACAAGAAAAAAT
* *
12325370 ATGTTTGTCTTGATTTAAGATAAGAAAAATAT
1 ATGTTTGTCTTAATTT-AGACAAGAAAAA-AT
* * * * *
12325402 TTTTTTGTCTTAATCTAGACAAGAATACAT
1 ATGTTTGTCTTAATTTAGACAAGAAAAAAT
* **
12325432 A--TTTGTCTCAAATTTAGACAAGATCAAAT
1 ATGTTTGTCT-TAATTTAGACAAGAAAAAAT
*
12325461 ATTTTTTGTCTTAATT
1 A-TGTTTGTCTTAATT
12325477 ACGGACAAGA
Statistics
Matches: 109, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
28 14 0.13
29 39 0.36
30 17 0.16
31 18 0.17
32 21 0.19
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (30 bp):
ATGTTTGTCTTAATTTAGACAAGAAAAAAT
Found at i:12325663 original size:18 final size:17
Alignment explanation
Indices: 12325628--12325661 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12325618 ATAATAATAA
12325628 AATAAGAGTTATTATTT
1 AATAAGAGTTATTATTT
12325645 AATAAGGAGTT-TTATTT
1 AATAA-GAGTTATTATTT
12325662 TATCGATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (17 bp):
AATAAGAGTTATTATTT
Found at i:12327894 original size:21 final size:21
Alignment explanation
Indices: 12327864--12327903 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12327854 AGCCTCACCA
*
12327864 ATCATTAAATACCACCAATAT
1 ATCATGAAATACCACCAATAT
*
12327885 ATCATGAAATATCACCAAT
1 ATCATGAAATACCACCAAT
12327904 TTCAGCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (21 bp):
ATCATGAAATACCACCAATAT
Found at i:12333961 original size:34 final size:34
Alignment explanation
Indices: 12333895--12334107 Score: 110
Period size: 34 Copynumber: 5.9 Consensus size: 34
12333885 ATGACCGTAC
* *
12333895 GTGTGCGGTGTGGAAGTGCACATGACTG-TGATAGTG
1 GTGTGCTGTGT-G-AGTGCACA-CACTGATGATAGTG
* *
12333931 GTGTGCTGTGTGAGTGCACACACTAATGATATATG
1 GTGTGCTGTGTGAGTGCACACACTGATGATA-GTG
* * * * * *
12333966 CCTTGTACGGTGTGGGAGTGCACATGAC-AAGGATAGTG
1 --GTGT--GCTGTGTGAGTGCACA-CACTGATGATAGTG
*
12334004 GTGTGATGTGTGAGTGCACACACTGATGATCTA-TG
1 GTGTGCTGTGTGAGTGCACACACTGATGA--TAGTG
* ** * *
12334039 CCATGTGGGGTGTAGGAGTGCACATGAC-GGTGATAGTG
1 --GTGTGCTGTGT--GAGTGCACA-CACTGATGATAGTG
12334077 GTGTGCTGTGTGAGTGCACACACTGATGATA
1 GTGTGCTGTGTGAGTGCACACACTGATGATA
12334108 TATGCCACGT
Statistics
Matches: 134, Mismatches: 26, Indels: 36
0.68 0.13 0.18
Matches are distributed among these distances:
33 7 0.05
34 45 0.34
35 5 0.04
36 23 0.17
37 13 0.10
38 4 0.03
39 33 0.25
40 4 0.03
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.28
Consensus pattern (34 bp):
GTGTGCTGTGTGAGTGCACACACTGATGATAGTG
Found at i:12334019 original size:73 final size:73
Alignment explanation
Indices: 12333896--12334138 Score: 362
Period size: 73 Copynumber: 3.3 Consensus size: 73
12333886 TGACCGTACG
* * *
12333896 TGTGCGGTGTGGAAGTGCACATGACTGTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGAT
1 TGTGCGGTGTGGGAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
*
12333961 ATATGCCT
66 ATATGCCA
* *
12333969 TGTACGGTGTGGGAGTGCACATGACAAG-GATAGTGGTGTGATGTGTGAGTGCACACACTGATGA
1 TGTGCGGTGTGGGAGTGCACATGAC-AGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGA
*
12334033 TCTATGCCA
65 TATATGCCA
* * *
12334042 TGTGGGGTGTAGGAGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
1 TGTGCGGTGTGGGAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
12334107 ATATGCCA
66 ATATGCCA
* *
12334115 CGTGCGATGTGGGAGTGCACATGA
1 TGTGCGGTGTGGGAGTGCACATGA
12334139 TGATATTACC
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
72 1 0.01
73 149 0.99
74 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (73 bp):
TGTGCGGTGTGGGAGTGCACATGACAGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGAT
ATATGCCA
Found at i:12334167 original size:35 final size:36
Alignment explanation
Indices: 12334117--12334207 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
12334107 ATATGCCACG
*
12334117 TGCGATGTGGGAGTGCACATGATGATAT-TACCT-TT
1 TGCGTTGTGGGAGTGCACATGATGAT-TCTACCTATT
* * *
12334152 TGCAG-TGTGGTAGTGCACAAGATGATTCTAGCTATT
1 TGC-GTTGTGGGAGTGCACATGATGATTCTACCTATT
12334188 TGCGTTGTGGGAGTGCACAT
1 TGCGTTGTGGGAGTGCACAT
12334208 AAGCTGGTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
34 1 0.02
35 27 0.57
36 19 0.40
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (36 bp):
TGCGTTGTGGGAGTGCACATGATGATTCTACCTATT
Found at i:12337583 original size:18 final size:18
Alignment explanation
Indices: 12337562--12337596 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12337552 GTGTCCTTGT
12337562 TTTTCAT-TGTTGCTTTGA
1 TTTTCATAT-TTGCTTTGA
12337580 TTTTCATATTTGCTTTG
1 TTTTCATATTTGCTTTG
12337597 CAGTTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.63
Consensus pattern (18 bp):
TTTTCATATTTGCTTTGA
Found at i:12343422 original size:23 final size:23
Alignment explanation
Indices: 12343395--12343443 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12343385 TTACAATTGA
* *
12343395 GGTATCACCAATTGAGGATTAGG
1 GGTATCACCAATTAAGGAGTAGG
* *
12343418 GGTATCACTAGTTAAGGAGTAGG
1 GGTATCACCAATTAAGGAGTAGG
12343441 GGT
1 GGT
12343444 GTAGACATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.35, T:0.27
Consensus pattern (23 bp):
GGTATCACCAATTAAGGAGTAGG
Found at i:12365106 original size:42 final size:42
Alignment explanation
Indices: 12365046--12365165 Score: 177
Period size: 42 Copynumber: 2.9 Consensus size: 42
12365036 CATCTCATAT
* *
12365046 GCAACGACTTATGCGCACTCCTACTCACACATAGCCGGGTCA
1 GCAACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* * * *
12365088 GCAACAACTTATGTGCACTCCCATTCGCACATAGCCGGGTTA
1 GCAACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
*
12365130 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCC
1 GCAACGACTTATGTGCACTCCTACTCGCACATAGCC
12365166 AGATCCACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (42 bp):
GCAACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
Found at i:12368010 original size:26 final size:26
Alignment explanation
Indices: 12367950--12368011 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
12367940 ACCATATACC
*
12367950 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
12367976 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
12368002 TATCATCATC
1 CATCATCATC
12368012 TCATATGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.32, C:0.39, G:0.03, T:0.26
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:12368304 original size:42 final size:42
Alignment explanation
Indices: 12368246--12368327 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
12368236 ACGGAGGCAA
12368246 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
* *
12368288 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTC
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTC
12368328 CAAATCAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
Found at i:12375552 original size:26 final size:26
Alignment explanation
Indices: 12375492--12375553 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
12375482 ACCATATACC
*
12375492 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
12375518 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
12375544 CATCATCATC
1 CATCATCATC
12375554 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:12375846 original size:42 final size:42
Alignment explanation
Indices: 12375788--12375868 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
12375778 ATGGAGGCAA
12375788 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
* *
12375830 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGT
12375869 TCAAATCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
Found at i:12379780 original size:2 final size:2
Alignment explanation
Indices: 12379773--12379808 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12379763 CATGCACAAC
*
12379773 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12379809 CATCATAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12387580 original size:43 final size:43
Alignment explanation
Indices: 12387530--12387628 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
12387520 ATGTGCAATC
* ****
12387530 AGGGAGTGCGCATAAGCCGAG-GATGACCCGGTTATGTGCGAGT
1 AGGGAGTGCGCATAA-CCCAGTGATGACCCAACCATGTGCGAGT
*
12387573 AGGGAGTGCGCATAACCCAGTGATGATCCAACCATGTGCGAGT
1 AGGGAGTGCGCATAACCCAGTGATGACCCAACCATGTGCGAGT
*
12387616 AGGGATTGCGCAT
1 AGGGAGTGCGCAT
12387629 GAGCTGGTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 4 0.08
43 44 0.92
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.19
Consensus pattern (43 bp):
AGGGAGTGCGCATAACCCAGTGATGACCCAACCATGTGCGAGT
Found at i:12389385 original size:2 final size:2
Alignment explanation
Indices: 12389378--12389412 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12389368 TATAATGTTG
12389378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12389413 CTATGTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12391989 original size:20 final size:22
Alignment explanation
Indices: 12391964--12392012 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
12391954 AAGCTAAAAA
*
12391964 AGTCAACTT-TAAGA-AGCCAT
1 AGTCAACTTATAAAAGAGCCAT
*
12391984 AGTCAA-TTATAAAAGAGGCAT
1 AGTCAACTTATAAAAGAGCCAT
12392005 AGTCAACT
1 AGTCAACT
12392013 ATAGCAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 11 0.46
22 1 0.04
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (22 bp):
AGTCAACTTATAAAAGAGCCAT
Found at i:12392362 original size:20 final size:22
Alignment explanation
Indices: 12392314--12392362 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
12392304 TACCATCAAG
12392314 CTTTCAAAGTTGAATATTTACTT
1 CTTTC-AAGTTGAATATTTACTT
*
12392337 CATTCAAGTTGAA-ATTT-CTT
1 CTTTCAAGTTGAATATTTACTT
12392357 CTTTCA
1 CTTTCA
12392363 CTACAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (22 bp):
CTTTCAAGTTGAATATTTACTT
Found at i:12402135 original size:25 final size:25
Alignment explanation
Indices: 12402107--12402156 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12402097 CGCGTATCAC
* *
12402107 AACTTGTGGCCTAGCCACATATAAT
1 AACTCGTGACCTAGCCACATATAAT
* *
12402132 AACTCGTGACCTTGCCACGTATAAT
1 AACTCGTGACCTAGCCACATATAAT
12402157 CACAGACCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (25 bp):
AACTCGTGACCTAGCCACATATAAT
Found at i:12403532 original size:4 final size:4
Alignment explanation
Indices: 12403518--12403588 Score: 69
Period size: 4 Copynumber: 17.8 Consensus size: 4
12403508 CAAACTATGC
*
12403518 CTTT CCTTT CTTT CTCT C-TT -TTT CTTT CTTT CTTT CCTTT CCTTT CCTTT
1 CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT -CTTT -CTTT -CTTT
12403568 C-TT CTTT C-TT CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTT
12403589 CTCCTTTCTC
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
3 9 0.15
4 32 0.54
5 18 0.31
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:12403543 original size:14 final size:14
Alignment explanation
Indices: 12403524--12403608 Score: 54
Period size: 14 Copynumber: 6.1 Consensus size: 14
12403514 ATGCCTTTCC
12403524 TTTCTTTCTCTCTT
1 TTTCTTTCTCTCTT
*
12403538 TTTCTTTCTTTC-T
1 TTTCTTTCTCTCTT
*
12403551 TTCCTTTC-CT-TT
1 TTTCTTTCTCTCTT
*
12403563 CCTTTC-TTCTTTCTT
1 --TTTCTTTCTCTCTT
12403578 CTTTCTTTCTTCTCCTT
1 -TTTCTTTC-TCT-CTT
*
12403595 TCTCTTTC-CTCTT
1 TTTCTTTCTCTCTT
12403608 T
1 T
12403609 GTCTCTGGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
12 2 0.04
13 15 0.27
14 22 0.39
15 5 0.09
16 9 0.16
17 3 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTCTTTCTCTCTT
Found at i:12403546 original size:18 final size:18
Alignment explanation
Indices: 12403523--12403602 Score: 81
Period size: 18 Copynumber: 4.3 Consensus size: 18
12403513 TATGCCTTTC
12403523 CTTTCTTTCTCTCTTTTT
1 CTTTCTTTCTCTCTTTTT
* * *
12403541 CTTTCTTTCTTTCCTTTC
1 CTTTCTTTCTCTCTTTTT
12403559 CTTTCCTTTCT-TCTTTCTT
1 CTTT-CTTTCTCTCTTT-TT
*
12403578 CTTTCTTTCTTCTCCTTTCT
1 CTTTCTTTC-TCT-CTTTTT
12403598 CTTTC
1 CTTTC
12403603 CTCTTTGTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
18 28 0.55
19 12 0.24
20 7 0.14
21 4 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTCTTTCTCTCTTTTT
Found at i:12409783 original size:43 final size:43
Alignment explanation
Indices: 12409713--12409831 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
12409703 GTAATTATGT
* *
12409713 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
12409756 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
12409799 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
12409832 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:12409841 original size:43 final size:43
Alignment explanation
Indices: 12409723--12409844 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
12409713 TGACTCGGCT
* **
12409723 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
12409766 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
12409809 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
12409845 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:12409855 original size:20 final size:20
Alignment explanation
Indices: 12409830--12409892 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
12409820 GGGAGTGCGC
12409830 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
12409850 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
12409870 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
12409889 ATGA
1 ATGA
12409893 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:12417651 original size:43 final size:43
Alignment explanation
Indices: 12417590--12417717 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
12417580 TTGACTCGGC
*
12417590 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCAGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGT
** *
12417633 TATGTGCGAGTAGGGAGTGCGCATAACCCGATAATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGT
* *
12417676 TATGTGCGAGTATGGAGTGCACATAACCCG-GTGATGACCCAG
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGAG-GATGACCCAG
12417718 CCATGTACGA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAGT
Found at i:12417763 original size:20 final size:20
Alignment explanation
Indices: 12417738--12417800 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
12417728 GGGAGTGTGC
12417738 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
*
12417758 ATGAGCTGGTGATAATGATG
1 ATGAGCTGGTGATGATGATG
* *
12417778 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
12417797 ATGA
1 ATGA
12417801 TGGGTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 9 0.24
20 29 0.76
ACGTcount: A:0.27, C:0.03, G:0.40, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:12428502 original size:35 final size:35
Alignment explanation
Indices: 12428456--12428537 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
12428446 CTTTAGCTTA
12428456 TGATTTTGAAGGCTGAAAGGTGCGGTTTTGGCTAT
1 TGATTTTGAAGGCTGAAAGGTGCGGTTTTGGCTAT
* * *
12428491 TGATTTTGAAGGTTGAAAGGTGCGGTTTTGGTTGT
1 TGATTTTGAAGGCTGAAAGGTGCGGTTTTGGCTAT
12428526 TGATCTTTGAAG
1 TGAT-TTTGAAG
12428538 CTTTGGCTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
35 36 0.84
36 7 0.16
ACGTcount: A:0.20, C:0.06, G:0.34, T:0.40
Consensus pattern (35 bp):
TGATTTTGAAGGCTGAAAGGTGCGGTTTTGGCTAT
Found at i:12428625 original size:34 final size:34
Alignment explanation
Indices: 12428568--12428657 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
12428558 GAGAGGAAAG
* * *
12428568 GAGCAACTTAGCTCCTGATTTTTGAGGAAAAATA
1 GAGCAGCTTAGCTACTAATTTTTGAGGAAAAATA
* * *
12428602 GAGTAGCTTGGCTACTAATTTTTGAGGAAAAGTA
1 GAGCAGCTTAGCTACTAATTTTTGAGGAAAAATA
*
12428636 GAGCAGCTTAGCTACTGATTTT
1 GAGCAGCTTAGCTACTAATTTT
12428658 GATGTTGATA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (34 bp):
GAGCAGCTTAGCTACTAATTTTTGAGGAAAAATA
Found at i:12428850 original size:5 final size:5
Alignment explanation
Indices: 12428825--12428867 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
12428815 GGAGAGAGGA
12428825 AAAAG AGAAAG -AAAG -AAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
12428868 AATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.22
5 24 0.67
6 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:12457702 original size:2 final size:2
Alignment explanation
Indices: 12457691--12457724 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
12457681 ACACTTTACG
12457691 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12457725 TCCAAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12458241 original size:31 final size:33
Alignment explanation
Indices: 12458183--12458248 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 33
12458173 CTTCTCCATT
* *
12458183 TTTCCTATTTGGGCCAAACCTATTTATTTT-TA
1 TTTCCTATTTGGGCCAAACCCACTTATTTTCTA
**
12458215 TTTCCTATTT-GGCCATGCCCACTTATTTTCTA
1 TTTCCTATTTGGGCCAAACCCACTTATTTTCTA
12458247 TT
1 TT
12458249 AGGTCATGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (33 bp):
TTTCCTATTTGGGCCAAACCCACTTATTTTCTA
Found at i:12458289 original size:26 final size:25
Alignment explanation
Indices: 12458211--12458299 Score: 115
Period size: 25 Copynumber: 3.4 Consensus size: 25
12458201 CCTATTTATT
*
12458211 TTTATTTCCTATTTGGCCATGCCCA
1 TTTATTTTCTATTTGGCCATGCCCA
* * *
12458236 CTTATTTTCTATTAGGTCATGCCCA
1 TTTATTTTCTATTTGGCCATGCCCA
12458261 TTTATTTTCTATTTGGGCCATGCCCA
1 TTTATTTTCTATTT-GGCCATGCCCA
12458287 TTTTTATTTTCTA
1 --TTTATTTTCTA
12458300 CTTCTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 33 0.61
26 10 0.19
28 11 0.20
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.49
Consensus pattern (25 bp):
TTTATTTTCTATTTGGCCATGCCCA
Found at i:12458372 original size:22 final size:22
Alignment explanation
Indices: 12458344--12458391 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
12458334 CCGTCACTCC
*
12458344 CTTCACCACCATGTCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
*
12458366 CTTCACCACCGTGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
12458388 CTTC
1 CTTC
12458392 CTTGGCTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.46, G:0.08, T:0.35
Consensus pattern (22 bp):
CTTCACCACCATGGCTTCCTCT
Found at i:12458551 original size:34 final size:34
Alignment explanation
Indices: 12458504--12458589 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
12458494 CAATGCTGTT
* *
12458504 CAATTTTTTTGCACAAATTGGCAGCAAACAACTC
1 CAATTTTTCTGCACAAATTGGCAACAAACAACTC
*
12458538 CAATTTTTCTGCACAAATTGGCAACAAACAGCTC
1 CAATTTTTCTGCACAAATTGGCAACAAACAACTC
*
12458572 TAATTTTTCTGCAGCAAA
1 CAATTTTTCTGCA-CAAA
12458590 CAGCTCCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 43 0.91
35 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (34 bp):
CAATTTTTCTGCACAAATTGGCAACAAACAACTC
Done.