Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401405.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4533.0, whole genome shotgun sequence
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: 11628
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.33
Warning! 709 characters in sequence are not A, C, G, or T
Found at i:414 original size:171 final size:170
Alignment explanation
Indices: 1--2550 Score: 1846
Period size: 171 Copynumber: 15.0 Consensus size: 170
* * ** * *
1 AAGCGAGTAATAAGACTTTTAAAGGCATGGGTGACTATAAATGGACTTTTCTTGTCAATG-ATAG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
* * * *
65 CCTTTTTCTTCACGTTTCTTGAGGCAATCATTCAATTATAATTTGTTTTAACTAAAAATGTAAAC
66 -CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAAA-
* * * * *
130 AAAATTTAACCTAAAATTAATTATGACATTATAAAACCATTTA
129 AAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * *** * * * * * *
173 AAGAGAGTAATAAGGCTTTCGAAAAAATAGGTAACTATAAATGGACCTTTCTTGCCAATAAATGG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
* * * * *
238 CTTTTTCTTCACATTTCCTAAAGTAAACATTCAATTATAATCTGTTTTAACAAAAAATGCAAAAA
66 CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAA
* * *
303 GAATCAACCTAAAATCAATTATGAGATTGTAAAACCATTTC
131 -AATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * * * **
344 AAGCAAGTGATTAGGCTTTCGAAGGCTTGGGAGACTAGAAATAGACTTTTCTTGTTAATGAATAG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
** * * * * * * * * **
409 CTTTTTCCCCATGTTTCTTGAGGTAGATATTCAATGATAATCTATTTTAACCAAAAACATAAAAA
66 CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAA
* * * *
474 AATTAACTTAAAATTAACTATGAGATTATAAAACCATTCG
131 AATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * *
514 GAGCGCA-TAATAAGGCTTTCAAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATG-ATA
1 AAGCG-AGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATA
* * * * ** * **
577 GCTTTTTTCTTCATGTTT-TTCAAGACAAACCTTCAATTATAATATGTTTTCTCTAAAAACATAA
65 GC-TTTTTCTTCACGTTTCTT-AAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAA
* ** * *
641 AACAATTTGACCTAAAATCAATTACGAGATTATAAAACCATTTG
128 AA-AAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * * * * * ** * *
685 AAGTGAGTAATTACGATTTTGAAGGCTTGGGTGACTAGAAGTAGACTTTTCTTATCAGTGAATGG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
* * * * * * ** *
750 CTTTTTCTTCACGTTTTTTAGGGTAGATATTCAATTATAATCTATTTTAATGAAAAATATAAAAA
66 CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAA
* * * * *
815 ATTGAA-TCAAAAATTAATTATGAGATTATAAAATCATTTG
131 AATCAACT-TAAAATCAATTATGAGATTATAAAACCATTTG
* * * * * *
855 AAGCGCGTAATAAGGCTTTCAAAGGCATGGGTCACTATAAATAGACTTTGTTTTGTCAATG-ATA
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTT-TCTTGCCAATGAATA
* * * *
919 GCTTTTTTCATCAAGTTTCTTAAGG-AAGACATTCAATAATAATCTATTTTCAAC-AAAAATGTA
65 GC-TTTTTCTTCACGTTTCTTAAGGCAA-ACATTCAATTATAATCTGTTTT-AACAAAAAATGTA
* ** *
982 AAAAAATTCAACTTCAAATCAATTACCAAATTATAAAACCATTTG
127 AAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * ** ** * *
1027 AAGCGAGTAATTACGATTTTTAAGGCAAT-GGCAACTATAAATGGACTTTTCTTGCTAATGAATA
1 AAGCGAGTAATTAGGCTTTCGAAGGC-ATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATA
* * ** * * * * * *
1091 ACTTTTTCTTCATGTTTCTCCAGGCAGACATTCAATTATAATCTGTTCTAATAAATAAGGCAAAA
65 GCTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAA
* * * *
1156 CAATTCAACTTCAAATCAATTATGAGATTATAAAATCATTTA
130 -AAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * * *
1198 AAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAAT-GAACTTTTGTTACCAATGAAT-
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAATA
* * * * * *
1261 GCCTTTTTCTTCATGTTTCTTAAGGCAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAAA
65 G-CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAAA
* * ** *
1326 AAATTTAAAATAAAATTAATTATGAGATTATAAAACCATTTG
129 AAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * *
1368 AAGCGCGTAATAAGGCTTTCAAAGGCATGGGTCACTATAAATAGACTTTTCTTGCCAATG-ATAG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
* * * *
1432 TTTTTTTCCATCACGTTT-TTAGAGG-AAGACATTCAATAATAATCTATTTTCAACAAAAAATGT
66 -CTTTTT-CTTCACGTTTCTTA-AGGCAA-ACATTCAATTATAATCTGTTTT-AACAAAAAATGT
* ** *
1495 AAAAAAATTCAACTTGAAATCAATTACCAAATTATAAAACCATTTG
126 AAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
*** ** ** * *
1541 AAGCGAGTAATTACAATTTTTAAGGCATGGGCAACTATAAATGGACTTTTCTTGCCAATGAATAA
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
** ** * * * *
1606 CTTTTTCTTCATATTTCTCCAGACAAAAATTCAATTATAATCTGTTCTAATAAAAAA-GATGAAA
66 CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATG-T-AAA
* * * * * *
1670 AAATTCGAA-TTCAAATCAATTATAAGATTATGAAATCATTTA
129 AAAATC-AACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * * * * * * *
1712 AAGCGAGTAATTTGGCTTTTGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAATGG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
** * * * ** *
1777 C-TTTTCTTCATATTTCTTGAGGCAGATATTCAATTATAATCTGTTTTGGTC-AAAAATATAAAA
66 CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTT-AACAAAAAATGTAAAA
* * * *
1840 AAATTCAGCTTAAAATTAATTATGATATTGTAAAACCATTTG
130 AAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * * *
1882 AATC-ACGTAATAAGGCTTTCAAACGCAT-GG-G----T-AATAGACTTTTCTTACCAATG-ATA
1 AAGCGA-GTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATA
* ** *
1938 GCGTTTTTCATCACGTTTCCCAAGG-AAGACATTCAATAATAATCTGTTTTCAACAAAAACA--T
65 GC-TTTTTCTTCACGTTTCTTAAGGCAA-ACATTCAATTATAATCTGTTTT-AACAAAAA-ATGT
* * ** * *
2000 AAAAAACTTCAACTTGAAATCAATTACCAAATTATAAAACCATTTA
126 AAAAAA-ATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * ** * ** * *
2046 AAGTGAGTAATTATGATTTTTAAGGCATAGGCAACTATAAATGGACTTTTCTTGCCAATGAATAA
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
* * * * * * * *
2111 CTTTTTCTTCATC-TTTTTCTAA-ACAGACATTTAATTATTATCTGTTCTAATAAAAAAGGTCAA
66 CTTTTTCTTCA-CGTTTCT-TAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGT-AA
* ** * * *
2174 AAAATTTGACTTAAAATTAATTATGAGATTATAAAATCATTTA
128 AAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * ** * * * * *
2217 AAGCGAGTAATTAGACATTCGAAGGCTTGAATGACTAGAAATGGACTTTTGTTACCAATGAATGG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
* * * * * * * * *
2282 CTATTTCTTCATGTTTCTTGAGGCAGATATTGAATTGTAATCTGTTTTAGTC-AAAAATATAAAA
66 CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTA-ACAAAAAATGTAAAA
* * *
2346 AATTTAAC-TAAAATTAATTATGAGATTAT-AAACCATTTG
130 AAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
* * * ** * *
2385 AAGCGCGCAATAAGGCTTTTAAAGGCATGGGTCACTATAAATAGACTTTTCTTGTCAATG-ATAG
1 AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
* * * ** * * *
2449 TCTTTTTCATCGCATTTC-TCGGGGAAGACATTCAATAATAATCTCTTTTCAAC-AAAAATGTAA
66 -CTTTTTCTTCACGTTTCTTAAGGCAA-ACATTCAATTATAATCTGTTTT-AACAAAAAATGTAA
* * * ** *
2512 AAAAGTTTAACTTGAAATCAATTACCAAATTATAAAACC
128 AAAA-ATCAACTTAAAATCAATTATGAGATTATAAAACC
2551 NNNNNNNNNN
Statistics
Matches: 1847, Mismatches: 459, Indels: 145
0.75 0.19 0.06
Matches are distributed among these distances:
162 4 0.00
163 20 0.01
164 91 0.05
165 7 0.00
166 1 0.00
167 7 0.00
168 96 0.05
169 47 0.03
170 431 0.23
171 798 0.43
172 248 0.13
173 94 0.05
174 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (170 bp):
AAGCGAGTAATTAGGCTTTCGAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAG
CTTTTTCTTCACGTTTCTTAAGGCAAACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAA
AATCAACTTAAAATCAATTATGAGATTATAAAACCATTTG
Found at i:679 original size:341 final size:340
Alignment explanation
Indices: 1--2550 Score: 1953
Period size: 341 Copynumber: 7.5 Consensus size: 340
* * * * * *
1 AAGCGAGTAATAAGACTTTTAAAGGCATGGGTGACTATAAATGGACTTTTCTTGTCAATG-ATAG
1 AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
* * * *
65 CCTTTTTCTTCACGTTTCTTGAGGCA-ATCATTCAATTATAATTTGTTTTAACTAAAAATGTAAA
66 -CTTTTTCTTCACGTTTCTTGAGGCAGAT-ATTCAATTATAATCTATTTTAACCAAAAATATAAA
* * * * *
129 CAAAATTTAACCTAAAATTAATTATGACATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTCG
129 -AAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTC-
** * * * * * * ** *
194 AAA-AAATAGGTAACTATAAATGGACCTTTCTTGCCAATAAATGGCTTTTTCTTCACATTTCCTA
192 AAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAAT-GATAGCTTTTTCTTCATGTTTCCTC
* * * *
258 AAG-TAAACATTCAATTATAATCTGTTTTAACAAAAA-ATGCAAAAAGAATCAACCTAAAATCAA
256 AAGACAAACATTCAATTATAATCTGTTTTCACAAAAACAT--AAAAA-ATTCAACTTAAAATCAA
* * *
321 TTATGAGATTGTAAAACCATTTC
318 TTACGAGATTATAAAACCATTTG
* * * * * **
344 AAGCAAGTGATTAGGCTTTCGAAGGCTTGGGAGACTAGAAATAGACTTTTCTTGTTAATGAATAG
1 AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
** * * * *
409 CTTTTTCCCCATGTTTCTTGAGGTAGATATTCAATGATAATCTATTTTAACCAAAAACATAAAAA
66 CTTTTTCTTCACGTTTCTTGAGGCAGATATTCAATTATAATCTATTTTAACCAAAAATATAAAAA
* * *
474 AATT-AACTTAAAATTAACTATGAGATTATAAAACCATTCGGAGCGCA-TAATAAGGCTTTCAAA
131 AATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCG-AGTAATAAGGCTTTCAAA
*
537 GGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGATAGCTTTTTTCTTCATGTTT-TTCAAG
195 GGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGATAGC-TTTTTCTTCATGTTTCCTCAAG
* * * ** *
601 ACAAACCTTCAATTATAATATGTTTTCTCTAAAAACATAAAACAATTTGACCTAAAATCAATTAC
259 ACAAACATTCAATTATAATCTGTTTTCAC-AAAAACATAAAA-AATTCAACTTAAAATCAATTAC
666 GAGATTATAAAACCATTTG
322 GAGATTATAAAACCATTTG
* * * * * ** * *
685 AAGTGAGTAATTACGATTTTGAAGGCTTGGGTGACTAGAAGTAGACTTTTCTTATCAGTGAATGG
1 AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
* * **
750 CTTTTTCTTCACGTTT-TTTAGGGTAGATATTCAATTATAATCTATTTTAATGAAAAATAT-AAA
66 CTTTTTCTTCACGTTTCTTGA-GGCAGATATTCAATTATAATCTATTTTAACCAAAAATATAAAA
* * * *
813 AAATTGAA-TCAAAAATTAATTATGAGATTATAAAATCATTTGAAGCGCGTAATAAGGCTTTCAA
130 AAATTCAACT-TAAAATTAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTCAA
* * * * * *
877 AGGCATGGGTCACTATAAATAGACTTTGTTTTGTCAATGATAGCTTTTTTCATCAAGTTT-CTTA
194 AGGCATGGGTGACTATAAATAGACTTT-TCTTGCCAATGATAGC-TTTTTCTTCATGTTTCCTCA
* * * ** *
941 AGGA-AGACATTCAATAATAATCTATTTTCAACAAAAATGTAAAAAAATTCAACTTCAAATCAAT
257 A-GACAAACATTCAATTATAATCTGTTTTC-ACAAAAACAT-AAAAAATTCAACTTAAAATCAAT
* *
1005 TACCAAATTATAAAACCATTTG
319 TACGAGATTATAAAACCATTTG
* * * ** * * *
1027 AAGCGAGTAATTACGATTTTTAAGGCAAT-GGCAACTATAAATGGACTTTTCTTGCTAATGAATA
1 AAGCGAGTAATTAGGCTTTTGAAGGC-ATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATA
* * ** * * * * ***
1091 ACTTTTTCTTCATGTTTCTCCAGGCAGACATTCAATTATAATCTGTTCTAA-TAAATAAGGCAAA
65 GCTTTTTCTTCACGTTTCTTGAGGCAGATATTCAATTATAATCTATTTTAACCAAA-AATATAAA
* * * * * * *
1155 ACAATTCAACTTCAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATTAGGCTTTCGA
129 AAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTCAA
* * * * * *
1220 AGGCTTGAGTGACTAGAAAT-GAACTTTTGTTACCAATGA-ATGCCTTTTTCTTCATGTTT-CTT
194 AGGCATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGATA-G-CTTTTTCTTCATGTTTCCTC
* * * * * ** *
1282 AAGGCAGATATTCAATTATAATCTGTTTT-AGCCAAAAATATAAAAAATTTAAAATAAAATTAAT
256 AAGACAAACATTCAATTATAATCTGTTTTCA--CAAAAACATAAAAAATTCAACTTAAAATCAAT
*
1346 TATGAGATTATAAAACCATTTG
319 TACGAGATTATAAAACCATTTG
* * ** * *
1368 AAGCGCGTAATAAGGCTTTCAAAGGCATGGGTCACTATAAATAGACTTTTCTTGCCAATG-ATAG
1 AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
* * * * * * *
1432 TTTTTTTCCATCACGTTT-TTAGAGGAAGACATTCAATAATAATCTATTTTCAACAAAAAATGTA
66 -CTTTTT-CTTCACGTTTCTT-GAGGCAGATATTCAATTATAATCTATTTT-AACCAAAAATATA
* * ** * * *** *
1496 AAAAAATTCAACTTGAAATCAATTACCAAATTATAAAACCATTTGAAGCGAGTAATTACAATTTT
127 AAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTC
* ** * * *
1561 TAAGGCATGGGCAACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATATTT-CTC
192 AAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATG-ATAGCTTTTTCTTCATGTTTCCTC
* * * * * * *
1625 CAGACAAAAATTCAATTATAATCTGTTCTAATAAAAAAGATGAAAAAATTCGAA-TTCAAATCAA
256 AAGACAAACATTCAATTATAATCTGTTTTCA-CAAAAACAT-AAAAAATTC-AACTTAAAATCAA
** * * *
1689 TTATAAGATTATGAAATCATTTA
318 TTACGAGATTATAAAACCATTTG
* * * * * * *
1712 AAGCGAGTAATTTGGCTTTTGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAATGG
1 AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
** * ***
1777 C-TTTTCTTCATATTTCTTGAGGCAGATATTCAATTATAATCTGTTTTGGTCAAAAATATAAAAA
66 CTTTTTCTTCACGTTTCTTGAGGCAGATATTCAATTATAATCTATTTTAACCAAAAATATAAAAA
* * * *
1841 AATTCAGCTTAAAATTAATTATGATATTGTAAAACCATTTGAATC-ACGTAATAAGGCTTTCAAA
131 AATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGA-GTAATAAGGCTTTCAAA
* * * *
1905 CGCAT-GG-G----T-AATAGACTTTTCTTACCAATGATAGCGTTTTTCATCACGTTTCC-CAAG
195 GGCATGGGTGACTATAAATAGACTTTTCTTGCCAATGATAGC-TTTTTCTTCATGTTTCCTCAA-
* * *
1962 GA-AGACATTCAATAATAATCTGTTTTCAACAAAAACATAAAAAACTTCAACTTGAAATCAATTA
258 GACAAACATTCAATTATAATCTGTTTTC-ACAAAAACATAAAAAA-TTCAACTTAAAATCAATTA
* * *
2026 CCAAATTATAAAACCATTTA
321 CGAGATTATAAAACCATTTG
* * * * * ** * * *
2046 AAGTGAGTAATTATGATTTTTAAGGCATAGGCAACTATAAATGGACTTTTCTTGCCAATGAATAA
1 AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
* ** * * * * * ** ** *
2111 CTTTTTCTTCATC-TTT-TTCTAAACAGACATTTAATTATTATCTGTTCTAATAAAAAAGGTCAA
66 CTTTTTCTTCA-CGTTTCTT-GAGGCAGATATTCAATTATAATCTATTTTAACCAAAAATATAAA
** * * * * * *
2174 AAAATTTGACTTAAAATTAATTATGAGATTATAAAATCATTTAAAGCGAGTAATTAGACATTCGA
129 AAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTCAA
* ** * * * * * * **
2239 AGGCTTGAATGACTAGAAATGGACTTTTGTTACCAATGAATGGCTATTTCTTCATGTTT-CTTGA
194 AGGCATGGGTGACTATAAATAGACTTTTCTTGCCAATG-ATAGCTTTTTCTTCATGTTTCCTCAA
* * * * * * * *
2303 GGCAGATATTGAATTGTAATCTGTTTT-AGTCAAAAATATAAAAAATTTAAC-TAAAATTAATTA
258 GACAAACATTCAATTATAATCTGTTTTCA--CAAAAACATAAAAAATTCAACTTAAAATCAATTA
*
2366 TGAGATTAT-AAACCATTTG
321 CGAGATTATAAAACCATTTG
* * * * * * *
2385 AAGCGCGCAATAAGGCTTTTAAAGGCATGGGTCACTATAAATAGACTTTTCTTGTCAATG-ATAG
1 AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
* * * * * * * * * *
2449 TCTTTTTCATCGCATTTCTCGGGGAAGACATTCAATAATAATCTCTTTTCAA-CAAAAATGTAAA
66 -CTTTTTCTTCACGTTTCTTGAGGCAGATATTCAATTATAATCTATTTT-AACCAAAAATATAAA
* * * * ** *
2513 AAAGTTTAACTTGAAATCAATTACCAAATTATAAAACC
129 AAAATTCAACTTAAAATTAATTATGAGATTATAAAACC
2551 NNNNNNNNNN
Statistics
Matches: 1757, Mismatches: 381, Indels: 142
0.77 0.17 0.06
Matches are distributed among these distances:
333 12 0.01
334 143 0.08
335 103 0.06
336 1 0.00
337 1 0.00
338 4 0.00
339 127 0.07
340 52 0.03
341 492 0.28
342 384 0.22
343 337 0.19
344 95 0.05
345 6 0.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (340 bp):
AAGCGAGTAATTAGGCTTTTGAAGGCATGGGTGACTAGAAATAGACTTTTCTTGCCAATGAATAG
CTTTTTCTTCACGTTTCTTGAGGCAGATATTCAATTATAATCTATTTTAACCAAAAATATAAAAA
AATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTCAAAG
GCATGGGTGACTATAAATAGACTTTTCTTGCCAATGATAGCTTTTTCTTCATGTTTCCTCAAGAC
AAACATTCAATTATAATCTGTTTTCACAAAAACATAAAAAATTCAACTTAAAATCAATTACGAGA
TTATAAAACCATTTG
Found at i:3544 original size:340 final size:342
Alignment explanation
Indices: 2631--3789 Score: 805
Period size: 340 Copynumber: 3.4 Consensus size: 342
2621 NNNNNNNNNN
* * * * *
2631 ACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATCTTTCTCCAAGCAGACATTCA
1 ACTAGAAATGGACTTTTCTTACCAATGAATGACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
* * * * *
2696 ATTATAATCTATTCTAATAAAACAGG-TGAAAAATTTGACTTCAAATCAATTATGAGATTATAAA
66 ATTATAATCTGTTCTAATAAAAAAGGATAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
* * * * * * * * * * * * * *
2760 ATCATTTAAAGTG-AGTAATTAGGCTTTCGAAGGCT-TGAGTGACCAGAAATGGACTTTTGTTAC
131 ACCATTTGAAGCGCA-TAATAAGACTTTC-AAAGATATGGGTCACTATAAATAGACTTTTCTTGC
** * * * ** * * * * * * * *
2823 CAATGAATGGCTTTTTCTTCATATTTCTTGAGGTAA-ATATTCAATTATATTCTGTT-TTAGCTA
194 CAATGAATAACTTTTTCATCACATTTGTCCAAG-AAGACATTCAATAATAATCTATTCTCAACAA
* * * * *
2886 AAA-ATATAAAAAATTTAACTTAAAATTAATTACGAGAA-TATAAAACCATTTCAAGCGTGTAAT
258 AAACATA-AAAAAATTCAACTTAAAATCAATTACCA-AATTATAAAACCATTTAAAGCGAGTAAT
* * * * * **
2949 AAGACTTT-GAAAGGCATCAGTC
321 TACAATTTCG-AAGGAATGAGAA
* * * * ** * ** * * * * *
2971 ACTATAAATAGTCTTTTTTTGTCAATG-ATAGCCTTTTTCAACATGTTTCT-TGAGAAATATATT
1 ACTAGAAATGGACTTTTCTTACCAATGAAT-GACTTTTTCTTCATATTTCTCTAAG-CAGACATT
* * * * * * ** *
3034 CAATAATAATCTGTTTTCA-ACAAAAGCG-TAAAGAAGTTTAACTTGAAATCAATTACCAAATTA
64 CAATTATAATCTGTTCTAATAAAAAAG-GATAAA-AAATTTAACTTAAAATCAATTATGAGATTA
* ** * ** ** *
3097 TAAAACCATTTAAAGCGGGTAATTATGA-TTTTTAAGGCATGGG-CAACTATAAATGGACTTTTC
127 TAAAACCATTTGAAGCGCATAA-TAAGACTTTCAAAGATATGGGTC-ACTATAAATAGACTTTTC
* ** * * *
3160 TTGCCAATGAATAACTTTTTCTTCATGTTTGTCCAAGCAGACATTCAATTATAATCTGTTCT-AA
190 TTGCCAATGAATAACTTTTTCATCACATTTGTCCAAGAAGACATTCAATAATAATCTATTCTCAA
* * * ** * ** *
3224 TAAAAA-AGGTAAAAAAATAT-GACTTAAAATCAGTTATGAGATTATAAAATTATTTAAAGTGAG
255 CAAAAACA--TAAAAAAAT-TCAACTTAAAATCAATTACCAAATTATAAAACCATTTAAAGCGAG
*** ** **
3287 TAATTAGGCTTTCGAAGGCTTGAGTG
317 TAATTACAATTTCGAAGGAATGAGAA
* * * * * *
3313 ACTAGAAATGGACTTTTGTTACCAATGAATGGCTTTTTCTTCATGTTTCTTTAGGCAGATATTCA
1 ACTAGAAATGGACTTTTCTTACCAATGAATGACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
* * * * * * *
3378 ATTATAAT-TTTTTTAATCAAAAA-TATAAAAAATTTAATTTAAAATTAATTATTAGATTATAAA
66 ATTATAATCTGTTCTAATAAAAAAGGATAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
3441 ACCATTTGAAGCGCATAATAAGACTTTCAAAGATATGGGTCACTATAAATAGACTTTTCTTGCCA
131 ACCATTTGAAGCGCATAATAAGACTTTCAAAGATATGGGTCACTATAAATAGACTTTTCTTGCCA
* *
3506 ATG-ATAGTCTTTTTCATCACATTT-T-CAGAGGAAGACATTCAATAATAATCTATTTTCAACAA
196 ATGAATA-ACTTTTTCATCACATTTGTCCA-A-GAAGACATTCAATAATAATCTATTCTCAACAA
* *
3568 AAACATAAAAAAATTCAACTTGAAATCAATTACCAAATTATAAAACCATTTGAAGCGAGTAATTA
258 AAACATAAAAAAATTCAACTTAAAATCAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTA
** *
3633 CAATTTTTAAGGAATGGGAA
323 CAATTTCGAAGGAATGAGAA
** * * *
3653 ACTTTAAATGGACTTTTCTTGCTAATGAATTACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
1 ACTAGAAATGGACTTTTCTTACCAATGAATGACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
* *
3718 ATTATAATCTGTTCTAATAAAAAAGGGTAAAAAATTTGACTTAAAATCAATTATGAGATTATAAA
66 ATTATAATCTGTTCTAATAAAAAAGGATAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
*
3783 ATCATTT
131 ACCATTT
3790 AAAATGAGTA
Statistics
Matches: 633, Mismatches: 157, Indels: 56
0.75 0.19 0.07
Matches are distributed among these distances:
338 2 0.00
339 19 0.03
340 299 0.47
341 147 0.23
342 158 0.25
343 8 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (342 bp):
ACTAGAAATGGACTTTTCTTACCAATGAATGACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
ATTATAATCTGTTCTAATAAAAAAGGATAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
ACCATTTGAAGCGCATAATAAGACTTTCAAAGATATGGGTCACTATAAATAGACTTTTCTTGCCA
ATGAATAACTTTTTCATCACATTTGTCCAAGAAGACATTCAATAATAATCTATTCTCAACAAAAA
CATAAAAAAATTCAACTTAAAATCAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTACAA
TTTCGAAGGAATGAGAA
Found at i:3835 original size:171 final size:170
Alignment explanation
Indices: 2631--3840 Score: 1005
Period size: 171 Copynumber: 7.1 Consensus size: 170
2621 NNNNNNNNNN
* * *
2631 ACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATCTTTCTCCAAGCAGACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATTACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
* * * * * *
2696 ATTATAATCTATTCTAATAAAACAGGTGAAAAATTTGACTTCAAATCAATTATGAGATTATAAAA
66 ATTATAATCTGTTTTAATAAAAAAGGTAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAA
* * *
2761 TCATTTAAAGTGAGTAATTAGGCTTTCGAAGGCTTGAGTG
131 CCATTTAAAGCGAGTAATTAGACTTTCGAAGGCTTGAGTG
* * * * ** * * * *
2801 ACCAGAAATGGACTTTTGTTACCAATGAATGGCTTTTTCTTCATATTTCT-TGAGGTAAATATTC
1 ACTATAAATGGACTTTTCTTGCCAATGAATTACTTTTTCTTCATATTTCTCT-AAGCAGACATTC
* * * * *
2865 AATTATATTCTGTTTTAGCTAAAAATA--TAAAAAATTTAACTTAAAATTAATTACGAGAATATA
65 AATTATAATCTGTTTTA-ATAAAAA-AGGTAAAAAATTTAACTTAAAATCAATTATGAGATTATA
* * * * * *
2928 AAACCATTTCAAGCGTGTAATAAGACTTT-GAAAGGCATCAGTC
128 AAACCATTTAAAGCGAGTAATTAGACTTTCG-AAGGCTTGAGTG
* * * * ** * * * * *
2971 ACTATAAATAGTCTTTTTTTGTCAATG-A-TAGCCTTTTTCAACATGTTTCT-TGAGAAATATAT
1 ACTATAAATGGACTTTTCTTGCCAATGAATTA--CTTTTTCTTCATATTTCTCTAAG-CAGACAT
* * * * * ** *
3033 TCAATAATAATCTGTTTTCA-ACAAAAGCGTAAAGAAGTTTAACTTGAAATCAATTACCAAATTA
63 TCAATTATAATCTGTTTTAATAAAAAAG-GTAAA-AAATTTAACTTAAAATCAATTATGAGATTA
* ** * * **
3097 TAAAACCATTTAAAGCGGGTAATTATGA-TTTTTAAGGCATGGGCA
126 TAAAACCATTTAAAGCGAGTAATTA-GACTTTCGAAGGCTTGAGTG
* * * *
3142 ACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTGTCCAAGCAGACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATTACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
* * * *
3207 ATTATAATCTGTTCTAATAAAAAAGGTAAAAAAATATGACTTAAAATCAGTTATGAGATTATAAA
66 ATTATAATCTGTTTTAATAAAAAAGGT-AAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
** * *
3272 ATTATTTAAAGTGAGTAATTAGGCTTTCGAAGGCTTGAGTG
130 ACCATTTAAAGCGAGTAATTAGACTTTCGAAGGCTTGAGTG
* * * ** * * * *
3313 ACTAGAAATGGACTTTTGTTACCAATGAATGGCTTTTTCTTCATGTTTCTTTAGGCAGATATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATTACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
* * ** * * *
3378 ATTATAAT-TTTTTTAATCAAAAATATAAAAAATTTAATTTAAAATTAATTATTAGATTATAAAA
66 ATTATAATCTGTTTTAATAAAAAAGGTAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAA
* * * * * *
3442 CCATTTGAAGCGCA-TAATAAGACTTTC-AAAGATATGGGTC
131 CCATTTAAAGCG-AGTAATTAGACTTTCGAAGGCT-TGAGTG
* * * * *
3482 ACTATAAATAGACTTTTCTTGCCAATGATAGT-CTTTTTCATCACATTT-TC-AGAGGAAGACAT
1 ACTATAAATGGACTTTTCTTGCCAATGA-ATTACTTTTTCTTCATATTTCTCTA-A-GCAGACAT
* * * * * ** *
3544 TCAATAATAATCTATTTTCAACAAAAACA--TAAAAAAATTCAACTTGAAATCAATTACCAAATT
63 TCAATTATAATCTGTTTT-AATAAAAA-AGGT-AAAAAATTTAACTTAAAATCAATTATGAGATT
* * * ** ** * **
3607 ATAAAACCATTTGAAGCGAGTAATTACAATTTTTAAGGAATGGGAA
125 ATAAAACCATTTAAAGCGAGTAATTAGACTTTCGAAGGCTTGAGTG
* *
3653 ACTTTAAATGGACTTTTCTTGCTAATGAATTACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATTACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
* *
3718 ATTATAATCTGTTCTAATAAAAAAGGGTAAAAAATTTGACTTAAAATCAATTATGAGATTATAAA
66 ATTATAATCTGTTTTAATAAAAAA-GGTAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
* **
3783 ATCATTTAAAATGAGTAATTAGACTTTCGAAGGCTTGAGTG
130 ACCATTTAAAGCGAGTAATTAGACTTTCGAAGGCTTGAGTG
*
3824 ACTAAAAATGGACTTTT
1 ACTATAAATGGACTTTT
3841 GTTANNNNNN
Statistics
Matches: 806, Mismatches: 198, Indels: 71
0.75 0.18 0.07
Matches are distributed among these distances:
167 2 0.00
168 9 0.01
169 112 0.14
170 220 0.27
171 437 0.54
172 24 0.03
173 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (170 bp):
ACTATAAATGGACTTTTCTTGCCAATGAATTACTTTTTCTTCATATTTCTCTAAGCAGACATTCA
ATTATAATCTGTTTTAATAAAAAAGGTAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAA
CCATTTAAAGCGAGTAATTAGACTTTCGAAGGCTTGAGTG
Found at i:4345 original size:171 final size:170
Alignment explanation
Indices: 4050--4481 Score: 447
Period size: 171 Copynumber: 2.5 Consensus size: 170
4040 NNNNNNGAAG
* * * * ** * * *
4050 ACATTCAATAATAATCTGTTTACAACAAAAATGTAAAAAGGTTCAACTTGAAATCAATTACT-AA
1 ACATTCAATTATAATCTGTTTA-AGCAAAAAAGAAAAAAAATTTAACTTAAAATCAATTA-TGAG
* * ** * *
4114 ATTATAAAACCATTTGAAGAGAGTAATTACGATTTTTAAGGCATGGGCAACTATAAATGGACTTT
64 ATTATAAAACCATTTAAAGCGAGTAATTACGATTTCGAAGGCATGAGCAACTAGAAATGGACTTT
* * * *
4179 TCTTGCCAATGAATAGCTTTTTCTTCATCTTTCTCTGA-GCAG
129 TCTTACCAATGAATAGCTTTTTATTCATATTTCT-TGAGGCAA
* * * *
4221 ACATTCAATTATATTCTGTTCTAA-TAAAAAAGGAAAAAAAATTTGACTTCAAATCAATTATGAG
1 ACATTCAATTATAATCTGTT-TAAGCAAAAAA-GAAAAAAAATTTAACTTAAAATCAATTATGAG
* * * * **
4285 ATTATAAAATCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTT
64 ATTATAAAACCATTTAAAGCGAGTAATTACGATTTCGAAGGCATGAGCAACTAGAAATGGACTTT
* *
4350 TGTTACCAATGAATAGCTTTTTATTCATATTTCTTGAGGTAA
129 TCTTACCAATGAATAGCTTTTTATTCATATTTCTTGAGGCAA
* * * * * *
4392 ATATTCAATTATAATCTGTTTAAGCCAAAAATATAAAAAATTTAACATAAAATTAATTATGAGAT
1 ACATTCAATTATAATCTGTTTAAGCAAAAAAGAAAAAAAATTTAACTTAAAATCAATTATGAGAT
* *
4457 TATAAAACCATTTCAAGCGCGTAAT
66 TATAAAACCATTTAAAGCGAGTAAT
4482 AAAACTTTGA
Statistics
Matches: 214, Mismatches: 42, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
170 62 0.29
171 150 0.70
172 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (170 bp):
ACATTCAATTATAATCTGTTTAAGCAAAAAAGAAAAAAAATTTAACTTAAAATCAATTATGAGAT
TATAAAACCATTTAAAGCGAGTAATTACGATTTCGAAGGCATGAGCAACTAGAAATGGACTTTTC
TTACCAATGAATAGCTTTTTATTCATATTTCTTGAGGCAA
Found at i:5443 original size:171 final size:170
Alignment explanation
Indices: 4755--5554 Score: 492
Period size: 171 Copynumber: 4.7 Consensus size: 170
4745 NNNNNNNNNN
* * * *
4755 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATCTTTCTCTA-AGCAGACATTTAATTAT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAGAGCAAACATTCAATTAT
* *
4819 AATCTATTCTAATAAAAAAGGTCAAAAAATTTGACTTAAAATTAATTATGAGATTATAAAATCAT
66 AATCTATTCTAATAAAAAAGGT-AAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATCAT
*
4884 TTAAAGCGAGTAATTA-GATATTCGAAGGCTTGAATGACTAGA
130 TTAAAGCGAGTAATTAGGAT-TTCGAAGGCTTGAGTGACTA-A
* * ** ** * * * *
4926 AATGGACTTTTGTTACCAATGAATGGCTTTTTCTTCATGTTTCTTGAG-GCAGATATTGAATTGT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAGAGCAAACATTCAATTAT
* * * * ** *
4990 AATCTGTTTTAGTCAAAAATATAAAAAATTTAAC-TAAAATTAATTATGAGATTATAAAA-CTAT
66 AATCTATTCTAATAAAAAAGGTAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATC-AT
* * * * * * * * *
5053 TTGAAGCGCA-TAATAAGGCTTTC-AAAGATATGGGTCATTAT
130 TTAAAGCG-AGTAATTAGGATTTCGAAGGCT-TGAGTGACTAA
* * * * * *
5094 AATAAGACTTTTCTTGCCAATG-ATAGTCTTTTTCATCACG-TT-TCCAGAGGAAGACATTCGAT
1 AAT-GGACTTTTCTTGCCAATGAATA-ACTTTTTCTTCATGTTTCTCCAGAGCAA-ACATTCAAT
* * * * * * ** *
5156 AATAATCTATTTTCAA-CAAAAACGTAAAAAAATTCAACTTGAAATCAATTACCAAATTATAAAA
63 TATAATCTATTCT-AATAAAAAAGGT-AAAAAATTTAACTTAAAATCAATTATGAGATTATAAAA
* * *********** ** * * **
5220 CCATTTGAAGCNNNNNNNNNNAATTTTTAAGGCATGGGCAACTATA
126 TCATTTAAAGCGAGTAATTAGGATTTCGAAGGCTTGAGTGACTA-A
* *
5266 AATGGACTTTTCTTGCCAATGAATAACATTTTCTTCATGTTTCTCCAGA-CAAAAATTCAATTAT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAGAGCAAACATTCAATTAT
* * * * *
5330 AATCTGTTCTAATAAAAAAGGTGATAAAATTTGACTTCAAATCAATTATGAGATTATGAAATCAT
66 AATCTATTCTAATAAAAAAGGT-AAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATCAT
* * *
5395 TTAAAGCGAGTGATTAGGCTTTCGAAGGCTTGAGTGACTACC
130 TTAAAGCGAGTAATTAGGATTTCGAAGGCTTGAGTGACTA-A
* * ** * * * ** * *
5437 AATGGACTTTTGTTACCAATGAATGGCTTTTACATCATATTTCTTGAG-GCAGATATTCAATTAT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAGAGCAAACATTCAATTAT
* * * * *** ** * *
5501 AGTATGTTTTAGCCAAAAATATAAAAAATTCAACTTAAAATTAATTATGAGATT
66 AATCTATTCTAATAAAAAAGGTAAAAAATTTAACTTAAAATCAATTATGAGATT
5555 NNNNNNNNNN
Statistics
Matches: 467, Mismatches: 141, Indels: 43
0.72 0.22 0.07
Matches are distributed among these distances:
167 3 0.01
168 14 0.03
169 97 0.21
170 55 0.12
171 278 0.60
172 14 0.03
173 6 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAGAGCAAACATTCAATTAT
AATCTATTCTAATAAAAAAGGTAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATCATT
TAAAGCGAGTAATTAGGATTTCGAAGGCTTGAGTGACTAA
Found at i:5982 original size:171 final size:170
Alignment explanation
Indices: 5680--9184 Score: 2093
Period size: 171 Copynumber: 20.5 Consensus size: 170
5670 TTTCCAGGGA
* * * * *
5680 AGACATTCAATAATAATCTGTTTTCAA-CAAAAACGTAAAAATGTTCAACTTGAAATCAATT-TC
1 AGACATTCAATTATAATCTGTTTT-AATAAAAAATGTAAAAA-ATTCAACTTAAAATCAATTAT-
* * * * * * * ** * ** *
5743 CAAATTATAAAACTATTTAAAACGTGTAATTATGATTTTTAAGGCATGGGCAACTATAAATAGAC
63 GAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGAC
* * *
5808 TTTTCTTGCCAATGAATAATTTTTTCTTCATGCTTCTCCAAGC
128 TTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
* *
5851 AGACATTCAATTATATTCT-TTTCTAATAAAAAAGGTCAAAAAATTCAACTTAAAATCAATTATG
1 AGACATTCAATTATAATCTGTTT-TAATAAAAAATGT-AAAAAATTCAACTTAAAATCAATTATG
* ** * *
5915 AGATTATAAAATCATTTGGAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACT
64 AGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACT
* * ** * ** *
5980 TTTGTTACCAATGAATGGCTTTTTCTTTATGTTTCTTGAGGT
129 TTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
* * * * * *
6022 AGATATTCAATTATAATCTGTTTTAGTCAAAAATATAAAAAATTCGACTTAAAATTAATTATGAG
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAG
* * * * * * *
6087 ATTATAAAACCATTTGAAGCGCGTAATAAGGCTTTCAAAGG-TATGGGTCACTAT-GATAGACTT
66 ATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGACTT
* * ** * * *
6150 TTCTTGCCAATG-ATAGTCTTTTTCATCACATTTCTCGAGGA
130 TTCTTGCCAATGAATA-ACTTTTTCTTCATGTTTCTCCAAGT
* * * * **
6191 AAACATTCAATAATAATCTGTTTTGAA-CAAAAATGTAAAAAAGTTCAACTTGAAATCAATTACC
1 AGACATTCAATTATAATCTGTTTT-AATAAAAAATGTAAAAAA-TTCAACTTAAAATCAATTATG
* * ** * * * * **
6255 AAATTATAAAACTATTGGAATCGAGTAATTACGATTTCGAAGGCATGGGCAACTATAAATGGACT
64 AGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACT
* * *
6320 TTTCTTGCTAATTAATAACTTTTTCTTCATGTTTCTCCAGGT
129 TTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
* * * * ** **
6362 AGAAATTCAATTACAATCTGTTCTAATAAAAAAGGTAAAAAAATTTGACTTTCAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGA
* * * * *
6427 AATTATAAAATCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATAGACTT
65 GATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTT
* * * ** * *
6492 TTGTTACAAATGAATGGCTTTTTCTTCATATTTCT-TAAGGT
130 TTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAA-GT
* * *** * * * *
6533 AAATATTCAATTATAATCTGTTTTAGCCAATAATATAAAAAATTTAACTTAAAATTAATTATGAG
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAG
* * * * * * * *
6598 ATTATCAAACTATTTTAAGC-ACGTAATAAGGCTTT-GAAAGGCATCGGTCACTATAAATAGACT
66 ATTATAAAACCATTTAAAGCGA-GTAATTAGGCTTTCG-AAGGCTTGGGTGACTATAAATGGACT
* * * *
6661 TTTCTTGTCAATG-ATAACCTTTTTCATCATGTTTCT-CGAGAA
129 TTTCTTGCCAATGAATAA-CTTTTTCTTCATGTTTCTCCAAG-T
* * * * ** **
6703 AAACATTCAATAATAATCTGTTTTCAAT-AAAAATGTAAAAACGTTTAACAAAAAATCAATTACC
1 AGACATTCAATTATAATCTGTTTT-AATAAAAAATGTAAAAA-ATTCAACTTAAAATCAATTATG
* *** ** * * **
6767 AAATTATAAAACCATTTAAAGCGAGTAATTATAATTTTTAACGCATGGGCAACTATAAATGGACT
64 AGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACT
* * *
6832 TTTCTTGCCAATGAATAACTTTTTCTTCATGTTTGTCCATGC
129 TTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
* * ** *
6874 AGACATTCAATTATAATCTGTTCTAATAAAAAAGGTAAAAAAATTTGACTTCAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGA
* * * ** **
6939 GATTATAAAATCATTTAAAGCGAGTAATTAGGCTGTCAAAGGCTTAAGTGACTAGGAATGGACTT
65 GATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTT
* * * * ** *
7004 TTGTTACCAATGAATGACTTTTTCTTCATGTTTTTTGAGGT
130 TTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
* *** * * *
7045 AGATATTCAATTATAATCTGTTTTAGCCAAAAATATAAAAAATTCAACTTAAAATTAAATATGAG
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAG
* * * * * *
7110 ATTATAAAACCATTTCAAGTGCGTAATAAGGCTTTCGAAGG-TATGGGTCACTATAAATAGACTT
66 ATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGACTT
* * * * * *
7174 TTCTTGTCAAT-TATAGCCTTTTTCATCATGTTTCT-CGAGAA
130 TTCTTGCCAATGAATA-ACTTTTTCTTCATGTTTCTCCAAG-T
* * * * * *
7215 AGATATTCAATAATAATTTGTTTTCAAT-AAAAACGTAAAAAGGTTCAACTTGAAATCAATTA-G
1 AGACATTCAATTATAATCTGTTTT-AATAAAAAATGTAAAAA-ATTCAACTTAAAATCAATTATG
* * * *** ** * **
7278 CAAATTATAAAACCATTTGAAGAGAGTAATTACTATTTTTAAGGCATGGGCAACTATAAATGGAC
64 -AGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGAC
*
7343 TTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGC
128 TTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
* * * *
7386 AGACATTCAATTATAATCTGTTCTAATAAAAAAGGTGAAAAAATTCGACTTCAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGA
** * * * *
7451 GATTATAAAATTATTTAAAACGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGATTT
65 GATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGA-CT
* * * * ** * *
7516 TTTTTTACCAATGAA-AGGCTTTTTCTTCATATTTCTTGAGGC
129 TTTCTTGCCAATGAATA-ACTTTTTCTTCATGTTTCTCCAAGT
* *** * ******************
7558 AGATATTCAATTATAATCTGTTTTAGCCAAAAATATAAAAAATTC--NNNNNNNNNNNNNNNNNN
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAG
**************************** * * *
7621 NNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGCTTTCAAAGG-TATGGGTAACTATAAATGAAC-T
66 ATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGACTT
* * *
7684 TTCTTGCCAATGAATGCATTTTTTTTTC-TCGTTT-TCCAAGGT
130 TTCTTGCCAATGAAT-AACTTTTTCTTCAT-GTTTCTCCAA-GT
* * * * * * * *
7726 AAACACTCAATTATAATATGTTTTCACT-AAAAGTGTGAAACAACTT-AACATAAAATCAAGTAT
1 AGACATTCAATTATAATCTGTTTT-AATAAAAAATGT-AAA-AAATTCAACTTAAAATCAATTAT
* * * * * * * * *
7789 GAGATAATAAAATCATTTAAAGTGATTAATTACGATTTTGAAGG-TATGGGTAACGATAAATGGA
63 GAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGA
* * * * *
7853 CTTTTCTTGCCAGTGAATAGCGTTTTCTTTATGTTT-TCTAAGGT
127 CTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAA-GT
* * * * * * *
7897 AGACATTCAATTATAATATGTTTTAACCAAAAACAT-AAAAAAAATCATCCTAAAATCAATTATA
1 AGACATTCAATTATAATCTGTTTTAA-TAAAAA-ATGTAAAAAATTCAACTTAAAATCAATTATG
*** * * * * * * * *
7961 AGATTATAAATTTACTTAAAGCGAGTCATTAGGCTTTTGAAGACATGGGTAACTATAAACGAACT
64 AGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACT
* * *
8026 TTTCTTGCCAATGAATGACTTTTTCCTCAAG-TTC-CCAAGGT
129 TTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAA-GT
* * * * * *
8067 AGACTTTCAATTATAATCTGTTTTAACAAAACATATAAAAAATTCAACATAAAATCAATTATGAT
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAG
* * * * * *
8132 ATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAGG-GACTATGAATGGACTTT
66 ATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTT
* * * * * ** * *
8196 TCTTGCCTATG-ATAGCCTTTTTCTTAACGATTCTTGAGGC
131 TCTTGCCAATGAATA-ACTTTTTCTTCATGTTTCTCCAAGT
* * ** *
8236 AGACATTCAATTATAACCTGTTTTCACCAAAAATGTAAAAGAATTCAACCTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGA
* * * *
8301 GATTATAAAACTATTTAAAGTGAGTGATTAGGCTTTCGAAGGCTTGGGTGACTAGAAATGGACTT
65 GATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTT
*** * ** *
8366 TTCTTGCCAATGAATGGTTTTTTCTCTTCACGTTTCTTGAGGT
130 TTCTTGCCAATGAAT-AACTTTT-TCTTCATGTTTCTCCAAGT
* * * * * * *
8409 AGATATTCAATTATAAT-TTTTTTAACT-TAAAATATAAAAAATTCAACTAAAAATTAATTATGG
1 AGACATTCAATTATAATCTGTTTTAA-TAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * ** * **
8472 GATTATAAAATCAATTCAAGTGTGTAATAAGGCTTTCAAAGGCACGAGCAACTATAAATGGACTT
65 GATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTT
* * * * * *
8537 TTGTTGTCAATG-GTAGCCTTTTTCTTCATGTTTC-CTGAGGT
130 TTCTTGCCAATGAATA-ACTTTTTCTTCATGTTTCTC-CAAGT
* * * ** * *
8578 AGACATTCAATTATAATATGTTTTCATCAAAAACATAAACAAATTC-ACTTTAAAATTAATTACG
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAA-AAATTCAAC-TTAAAATCAATTATG
* * ** * * * * *
8642 ATATTATAAAACTA-TTGGAGCGAGTAATTACGATTTTGAAGGCATGGGTAAC-AGTAAATGGAC
64 AGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTA-TAAATGGAC
* * * * *
8705 TTTTCTTACCAATGTATATCTTTTTTTTCATGTTT-TCTAAGGT
128 TTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAA-GT
* ******************
8748 AGACATTCAATTATAATCTGTTTTAATAAAAAATATANNNNNNNNNNNNNNNNNNNCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTA-AAAAATTCAACTTAAAATCAATTATGA
* *
8813 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCCTT-GGTGACTATAAATAGG-C
65 GATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGG-CTTGGGTGACTATAAAT-GGAC
*** ** * * *
8876 TTTTCTTATGAATGAATGGCTTTTTCTTCAGGTTTC-CTTAGGT
128 TTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTC-CAAGT
* * * * * * ** *
8919 AGACATTCAACTGTAATCTGGTTTAGTAAAAATTGTAAAACAATTCAATTTAAGGTC-ATTGGGT
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAA-AATTCAACTTAAAATCAATT--AT
* * *** *
8983 G-GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG-TAAAAGTGACTATAAATGAA
63 GAGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTGACTATAAATGGA
* ***
9046 CTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCGGGGT
127 CTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
** ** * *
9090 AGACATTCAATTATAATCAATTTTAATGAAAAATATAAAAAAACATTTAACTTCAAATCAATTAT
1 AGACATTCAATTATAATCTGTTTTAAT-AAAAA-ATGTAAAAA-ATTCAACTTAAAATCAATTAT
9155 GAGATTATAAAACCATTTAAAGCGAGTAAT
63 GAGATTATAAAACCATTTAAAGCGAGTAAT
9185 AAGGTTTTTC
Statistics
Matches: 2518, Mismatches: 717, Indels: 196
0.73 0.21 0.06
Matches are distributed among these distances:
167 18 0.01
168 76 0.03
169 251 0.10
170 652 0.26
171 1278 0.51
172 165 0.07
173 75 0.03
174 3 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (170 bp):
AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAG
ATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTGACTATAAATGGACTTT
TCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGT
Found at i:6663 original size:341 final size:337
Alignment explanation
Indices: 5684--9184 Score: 1773
Period size: 341 Copynumber: 10.3 Consensus size: 337
5674 CAGGGAAGAC
* * * ** * * * *
5684 ATTCAATAATAATCTGTTTTCAACAAAAACGTAAAAATGTTCAACTTGAAATCAATT-TCCAAAT
1 ATTCAATTATAATCTGTTTT-AATAAAAAAGTAAAAAAATTCGACTTAAAATCAATTAT-GAGAT
* * * * * ** * *
5748 TATAAAACTATTTAAAACGTGTAATTATGATTTTTAAGGCATGGG-CAACTATAAATAGACTTTT
64 TATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTC-ACTAGAAATAGACTTTT
* *** ** * * * * * *
5812 CTTGCCAATGAATAATTTTTTCTTCATGCTTCTCCAAGCAGACATTCAATTATATTCT-TTTCTA
128 CTTACCAATGAATGGCTTTTTCTTCATATTTCTCGAGGAAAATATTCAATTATAATCTGTTT-TA
*** ** * *
5876 ATAAAAAAGGTCAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTGGAGCGAGT
192 GCCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAACT-ATTTGAAGCGAGT
* * * * * **
5941 AATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAATGGCTTTTTCT
255 AATTAGGCTTT-GAAGGCATG-GTCACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCT
* * *
6006 TTATGTTTCTTGAGGTAGAT
318 TCATGTTTCTCGAGGTAGAA
* * *
6026 ATTCAATTATAATCTGTTTTAGTCAAAAA-TATAAAAAATTCGACTTAAAATTAATTATGAGATT
1 ATTCAATTATAATCTGTTTTAATAAAAAAGTA-AAAAAATTCGACTTAAAATCAATTATGAGATT
* * * *
6090 ATAAAACCATTTGAAGCGCGTAATAAGGCTTTCAAAGG-TATGGGTCACTATG--ATAGACTTTT
65 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTCACTA-GAAATAGACTTTT
* * * * * *
6152 CTTGCCAATG-ATAGTCTTTTTCATCACATTTCTCGAGGAAAACATTCAATAATAATCTGTTTT-
128 CTTACCAATGAAT-GGCTTTTTCTTCATATTTCTCGAGGAAAATATTCAATTATAATCTGTTTTA
* * * ** * * *
6215 GAACAAAAATGTAAAAAAGTTCAACTTGAAATCAATTACCAAATTATAAAACTATTGGAATCGAG
192 G-CCAAAAATATAAAAAA-TTCAACTTAAAATCAATTATGAGATTAT-AAACTATTTGAAGCGAG
* * * * *
6280 TAATTACGATTTCGAAGGCATGGGCAACTATAAATGGACTTTTCTTGCTAATTAATAACTTTTTC
254 TAATTAGGCTTT-GAAGGCATGGTC-ACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTC
*
6345 TTCATGTTTCTCCAGGTAGAA
317 TTCATGTTTCTCGAGGTAGAA
* * * ** *
6366 ATTCAATTACAATCTGTTCTAATAAAAAAGGTAAAAAAATTTGACTTTCAATCAATTATGAAATT
1 ATTCAATTATAATCTGTTTTAATAAAAAA-GTAAAAAAATTCGACTTAAAATCAATTATGAGATT
* * * *
6431 ATAAAATCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATAGACTTTTGT
65 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTCACTAGAAATAGACTTTTCT
* ** *
6496 TACAAATGAATGGCTTTTTCTTCATATTTCTTAAGGTAAATATTCAATTATAATCTGTTTTAGCC
130 TACCAATGAATGGCTTTTTCTTCATATTTCTCGAGGAAAATATTCAATTATAATCTGTTTTAGCC
* * * *
6561 AATAATATAAAAAATTTAACTTAAAATTAATTATGAGATTATCAAACTATTTTAAGC-ACGTAAT
195 AAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAACTATTTGAAGCGA-GTAAT
* * * *
6625 AAGGCTTTGAAAGGCATCGGTCACTATAAATAGACTTTTCTTGTCAATG-ATAACCTTTTTCATC
258 TAGGCTTTG-AAGGCAT-GGTCACTATAAATGGACTTTTCTTGCCAATGAATAA-CTTTTTCTTC
* *
6689 ATGTTTCTCGA-GAAAAA
320 ATGTTTCTCGAGGTAGAA
* * ** ** ** ** *
6706 CATTCAATAATAATCTGTTTTCAATAAAAATGTAAAAACGTTTAACAAAAAATCAATTACCAAAT
1 -ATTCAATTATAATCTGTTTT-AATAAAAAAGTAAAAAAATTCGACTTAAAATCAATTATGAGAT
*** ** * * * *
6771 TATAAAACCATTTAAAGCGAGTAATTATAATTTTTAACGCATGGG-CAACTATAAATGGACTTTT
64 TATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTC-ACTAGAAATAGACTTTT
* ** * * * * * * * * *
6835 CTTGCCAATGAATAACTTTTTCTTCATGTTTGTCCATGCAGACATTCAATTATAATCTGTTCTAA
128 CTTACCAATGAATGGCTTTTTCTTCATATTTCTCGAGGAAAATATTCAATTATAATCTGTTTTAG
** ** * * *
6900 TAAAAAAGGTA-AAAAAATTTGACTTCAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGT
193 CCAAAAA--TATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAACT-ATTTGAAGCGAGT
** * * * ** * * *
6964 AATTAGGCTGTCAAAGGCTTAAGTGACTAGGAATGGACTTTTGTTACCAATGAATGACTTTTTCT
255 AATTAGGCT-TTGAAGGCAT-GGTCACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCT
* * *
7029 TCATGTTTTTTGAGGTAGAT
318 TCATGTTTCTCGAGGTAGAA
*** * * *
7049 ATTCAATTATAATCTGTTTTAGCCAAAAA-TATAAAAAATTCAACTTAAAATTAAATATGAGATT
1 ATTCAATTATAATCTGTTTTAATAAAAAAGTA-AAAAAATTCGACTTAAAATCAATTATGAGATT
* * * * *
7113 ATAAAACCATTTCAAGTGCGTAATAAGGCTTTCGAAGG-TATGGGTCACTATAAATAGACTTTTC
65 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTCACTAGAAATAGACTTTTC
** * * * * * *
7177 TTGTCAAT-TATAGCCTTTTTCATCATGTTTCTCGA-GAAAGATATTCAATAATAATTTGTTTTC
129 TTACCAATGAAT-GGCTTTTTCTTCATATTTCTCGAGGAAA-ATATTCAATTATAATCTGTTTT-
** ** * * * * *
7240 A-ATAAAAACGTAAAAAGGTTCAACTTGAAATCAATTA-GCAAATTATAAAACCATTTGAAGAGA
191 AGCCAAAAATATAAAAA-ATTCAACTTAAAATCAATTATG-AGATTAT-AAACTATTTGAAGCGA
*** * *
7303 GTAATTACTATTTTTAAGGCATGGGCAACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTT
253 GTAATTA-GGCTTTGAAGGCATGGTC-ACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTT
* * * *
7368 CTTCATGTTTCTCCAAGCAGAC
316 CTTCATGTTTCTCGAGGTAGAA
* * *
7390 ATTCAATTATAATCTGTTCTAATAAAAAAGGTGAAAAAATTCGACTTCAAATCAATTATGAGATT
1 ATTCAATTATAATCTGTTTTAATAAAAAA-GTAAAAAAATTCGACTTAAAATCAATTATGAGATT
** * * * * * *
7455 ATAAAATTATTTAAAACGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGATTTTTTT
65 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTCACTAGAAATAGA-CTTTTC
* * * *
7520 TTACCAATGAAAGGCTTTTTCTTCATATTTCTTGAGGCAGATATTCAATTATAATCTGTTTTAGC
129 TTACCAATGAATGGCTTTTTCTTCATATTTCTCGAGGAAAATATTCAATTATAATCTGTTTTAGC
**********************************************
7585 CAAAAATATAAAAAATTC-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
194 CAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAACTATTTGAAGCGAGTAATT
* * * * * * *
7649 AGGCTTTCAAAGGTATGGGTAACTATAAATGAAC-TTTCTTGCCAATGAATGCATTTTTTTTTC-
259 AGGCTTT-GAAGGCAT-GGTCACTATAAATGGACTTTTCTTGCCAATGAAT-AACTTTTTCTTCA
*
7712 TCGTTT-TCCAAGGTA-AA
321 T-GTTTCT-CGAGGTAGAA
* * * ** * * * * *
7729 CACTCAATTATAATATGTTTTCACTAAAAGTGTGAAACAACTT-AACATAAAATCAAGTATGAGA
1 -ATTCAATTATAATCTGTTTT-AATAAAAAAGT-AAAAAAATTCGACTTAAAATCAATTATGAGA
* * * * * * * * * * *
7793 TAATAAAATCATTTAAAGTGATTAATTACGATTTTGAAGG-TATGGGTAACGATAAATGGACTTT
63 TTATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGGGTCACTAGAAATAGACTTT
* * * * * * * * * * *
7857 TCTTGCCAGTGAATAGCGTTTTCTTTATGTTT-TCTAAGGTAGACATTCAATTATAATATGTTTT
127 TCTTACCAATGAATGGCTTTTTCTTCATATTTCTC-GAGGAAAATATTCAATTATAATCTGTTTT
* * * * * * * * *
7921 AACCAAAAACATAAAAAAAATCATCCTAAAATCAATTATAAGATTATAAATTTACTTAAAGCGAG
191 AGCCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAA-CTATTTGAAGCGAG
* * * * * *
7986 TCATTAGGCTTTTGAAGACATGGGTAACTATAAACGAACTTTTCTTGCCAATGAATGACTTTTTC
254 TAATTAGGC-TTTGAAGGCAT-GGTCACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTC
* * * * *
8051 CTCAAG-TTCCCAAGGTAGAC
317 TTCATGTTTCTCGAGGTAGAA
* * * * * *
8071 TTTCAATTATAATCTGTTTTAACAAAACA-TATAAAAAATTCAACATAAAATCAATTATGATATT
1 ATTCAATTATAATCTGTTTTAATAAAAAAGTA-AAAAAATTCGACTTAAAATCAATTATGAGATT
* * * * *
8135 ATAAAATCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAGGG--ACTATG-AATGGACTTTT
65 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGC-TTGGGTCACTA-GAAATAGACTTTT
* * * * * * * * * *
8197 CTTGCCTATG-ATAGCCTTTTTCTTAACGA-TTCTTGAGGCAGACATTCAATTATAACCTGTTTT
128 CTTACCAATGAAT-GGCTTTTTCTTCA-TATTTCTCGAGGAAAATATTCAATTATAATCTGTTTT
* * * *
8260 CA-CCAAAAATGTAAAAGAATTCAACCTAAAATCAATTATGAGATTATAAAACTATTTAAAGTGA
191 -AGCCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTAT-AAACTATTTGAAGCGA
* * * * ***
8324 GTGATTAGGCTTTCGAAGGCTTGGGTGACTAGAAATGGACTTTTCTTGCCAATGAATGGTTTTTT
253 GTAATTAGGCTTT-GAAGGCAT-GGTCACTATAAATGGACTTTTCTTGCCAATGAAT-AACTTTT
* * *
8389 CTCTTCACGTTTCTTGAGGTAGAT
315 -TCTTCATGTTTCTCGAGGTAGAA
* * * * * *
8413 ATTCAATTATAAT-TTTTTTAACT-TAAAA-TATAAAAAATTCAACTAAAAATTAATTATGGGAT
1 ATTCAATTATAATCTGTTTTAA-TAAAAAAGTA-AAAAAATTCGACTTAAAATCAATTATGAGAT
* * * * * * * ** * * *
8475 TATAAAATCAATTCAAGTGTGTAATAAGGCTTTCAAAGGCACGAG-CAACTATAAATGGACTTTT
64 TATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTC-ACTAGAAATAGACTTTT
* ** * * * * * * *
8539 GTTGTCAATG-GTAGCCTTTTTCTTCATGTTTC-CTGAGGTAGACATTCAATTATAATATGTTTT
128 CTTACCAATGAAT-GGCTTTTTCTTCATATTTCTC-GAGGAAAATATTCAATTATAATCTGTTTT
* * * * * *
8602 CA-TCAAAAACATAAACAAATTC-ACTTTAAAATTAATTACGATATTATAAAACTA-TTGGAGCG
191 -AGCCAAAAATATAAA-AAATTCAAC-TTAAAATCAATTATGAGATTAT-AAACTATTTGAAGCG
** * * * *
8664 AGTAATTACGATTTTGAAGGCATGGGTAAC-AGTAAATGGACTTTTCTTACCAATGTATATCTTT
252 AGTAATTA-GGCTTTGAAGGCAT-GGTCACTA-TAAATGGACTTTTCTTGCCAATGAATAACTTT
* * *
8728 TTTTTCATGTTT-TCTAAGGTAGAC
314 TTCTTCATGTTTCTC-GAGGTAGAA
******************
8752 ATTCAATTATAATCTGTTTTAATAAAAAA-TATANNNNNNNNNNNNNNNNNNNCAATTATGAGAT
1 ATTCAATTATAATCTGTTTTAATAAAAAAGTA-A-AAAAATTCGACTTAAAATCAATTATGAGAT
* * * * *
8816 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCCTT-GGTGACTATAAATAGGCTTTT
64 TATAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGG-CTTGGGTCACTAGAAATAGACTTTT
** ** * * * * * * *
8880 CTTATGAATGAATGGCTTTTTCTTCAGGTTTC-CTTAGGTAGACATTCAACTGTAATCTGGTTTA
128 CTTACCAATGAATGGCTTTTTCTTCATATTTCTC-GAGGAAAATATTCAATTATAATCTGTTTTA
* * * ** * * *
8944 G-TAAAAATTGTAAAACAATTCAATTTAAGGTC-ATTGGGTG-GATTATAAAACCATTTAAAGCG
192 GCCAAAAA-TATAAAA-AATTCAACTTAAAATCAATT--ATGAGATTAT-AAACTATTTGAAGCG
* * ** * * *
9006 AGTAATAAGGCTTTTGAAGGTAAAAGTGACTATAAATGAACTTTTCTTGCCAATGAATATCTTTT
252 AGTAATTAGGC-TTTGAAGG-CATGGTCACTATAAATGGACTTTTCTTGCCAATGAATAACTTTT
* *
9071 TCTTCATGTTTCTCGGGGTAGAC
315 TCTTCATGTTTCTCGAGGTAGAA
** ** *
9094 ATTCAATTATAATCAATTTTAATGAAAAATA-TAAAAAAACATTTAACTTCAAATCAATTATGAG
1 ATTCAATTATAATCTGTTTTAAT-AAAAA-AGT-AAAAAA-ATTCGACTTAAAATCAATTATGAG
9158 ATTATAAAACCATTTAAAGCGAGTAAT
62 ATTATAAAACCATTTAAAGCGAGTAAT
9185 AAGGTTTTTC
Statistics
Matches: 2383, Mismatches: 659, Indels: 232
0.73 0.20 0.07
Matches are distributed among these distances:
338 12 0.01
339 280 0.12
340 437 0.18
341 934 0.39
342 572 0.24
343 104 0.04
344 43 0.02
345 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (337 bp):
ATTCAATTATAATCTGTTTTAATAAAAAAGTAAAAAAATTCGACTTAAAATCAATTATGAGATTA
TAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGGGTCACTAGAAATAGACTTTTCTT
ACCAATGAATGGCTTTTTCTTCATATTTCTCGAGGAAAATATTCAATTATAATCTGTTTTAGCCA
AAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAACTATTTGAAGCGAGTAATTAG
GCTTTGAAGGCATGGTCACTATAAATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTT
CTCGAGGTAGAA
Found at i:6908 original size:512 final size:512
Alignment explanation
Indices: 4755--11628 Score: 3510
Period size: 512 Copynumber: 13.5 Consensus size: 512
4745 NNNNNNNNNN
* * *
4755 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATCTTTCTCTAAGCAGACATTTAATTATA
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTCAATTATA
* * * * *
4820 ATCTATTCTAATAAAAAAGGTCAAAAAATTTGACTTAAAATTAATTATGAGATTATAAAATCATT
66 ATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCATT
* *
4885 TAAAGCGAGTAATTA-GATATTCGAAGGCTTGAATGACTAGAAATGGACTTTTGTTACCAATGAA
131 TAAAGCGAGTAATTAGGCT-TTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAA
* * * * *
4949 TGGCTTTTTCTTCATGTTTCTTGAGGCAGATATTGAATTGTAATCTGTTTTAGTCAAAAATATAA
195 TGGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAA
* * * * *
5014 AAAATTTAAC-TAAAATTAATTATGAGATTATAAAACTATTTGAAGCGCATAATAAGGCTTTCAA
260 AAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCTTTGAA
* * * * *
5078 AGATATGGGTCATTAT-AATAAGACTTTTCTTGCCAATGATAGTCTTTTTCATCACGTTTC-CAG
325 AGGTATGGGTCACTATAAAT-AGACTTTTCTTGTCAATGATAGCCTTTTTCATCATGTTTCTC-G
* * * * *
5141 AGGAAGACATTCGATAATAATCTATTTTCAACAAAAACGTAAAAAAATTCAACTTGAAATCAATT
388 AGAAAAACATTCAATAATAATCTGTTTTCAACAAAAACGTAAAAAAGTTCAACTTGAAATCAATT
* ***********
5206 ACCAAATTATAAAACCATTTGAAGCNNNNNNNNNNAATTTTTAAGGCATGGGCAACTATA
453 ACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACTATA
* * *
5266 AATGGACTTTTCTTGCCAATGAATAACATTTTCTTCATGTTTCTCC-AGACAAAAATTCAATTAT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAG-CAGACATTCAATTAT
* * * *
5330 AATCTGTTCTAATAAAAAAGGTGATAAAATTTGACTTCAAATCAATTATGAGATTATGAAATCAT
65 AATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCAT
* **
5395 TTAAAGCGAGTGATTAGGCTTTCGAAGGCTTGAGTGACTACCAATGGACTTTTGTTACCAATGAA
130 TTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAA
* * * * *
5460 TGGCTTTTACATCATATTTCTTGAGGCAGATATTCAATTATAGTATGTTTTAGCCAAAAATATAA
195 TGGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAA
**********
5525 AAAATTCAACTTAAAATTAATTATGAGATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
260 AAAATTCAACTTAAAATTAATTATGAGATT-------------------------ATAAAACCAT
*****************************************************************
5590 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
300 TTCAAGCGCGTAATAAGGCTTTGAAAGGTATGGGTCACTATAAATAGACTTTTCTTGTCAATGAT
************ * *
5655 NNNNNNNNNNNNCAT-TTTC-C-AGGGAAGACATTCAATAATAATCTGTTTTCAACAAAAACGTA
365 AGCCTTTTTCATCATGTTTCTCGA-GAAAAACATTCAATAATAATCTGTTTTCAACAAAAACGTA
* * * * *
5717 AAAATGTTCAACTTGAAATCAATTTCCAAATTATAAAACTATTTAAAACGTGTAATTATGATTTT
429 AAAAAGTTCAACTTGAAATCAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTT
5782 TAAGGCATGGGCAACTATA
494 TAAGGCATGGGCAACTATA
* * *
5801 AATAGACTTTTCTTGCCAATGAATAATTTTTTCTTCATGCTTCTCCAAGCAGACATTCAATTATA
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTCAATTATA
* * * * *
5866 TTCTTTTCTAATAAAAAAGGTCAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATT
66 ATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCATT
**
5931 TGGAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAAT
131 TAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAAT
* * *
5996 GGCTTTTTCTTTATGTTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGTCAAAAATATAAA
196 GGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAAA
* * *
6061 AAATTCGACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGCGCGTAATAAGGCTTTCAAA
261 AAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCTTTGAAA
* * * ** *
6126 GGTATGGGTCACTAT-GATAGACTTTTCTTGCCAATGATAGTCTTTTTCATCACATTTCTCGAGG
326 GGTATGGGTCACTATAAATAGACTTTTCTTGTCAATGATAGCCTTTTTCATCATGTTTCTCGAGA
* *
6190 AAAACATTCAATAATAATCTGTTTTGAACAAAAATGTAAAAAAGTTCAACTTGAAATCAATTACC
391 AAAACATTCAATAATAATCTGTTTTCAACAAAAACGTAAAAAAGTTCAACTTGAAATCAATTACC
* ** * * **
6255 AAATTATAAAACTATTGGAATCGAGTAATTACGATTTCGAAGGCATGGGCAACTATA
456 AAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACTATA
* * * * * *
6312 AATGGACTTTTCTTGCTAATTAATAACTTTTTCTTCATGTTTCTCCAGGTAGAAATTCAATTACA
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTCAATTATA
* *
6377 ATCTGTTCTAATAAAAAAGGTAAAAAAATTTGACTTTC-AATCAATTATGAAATTATAAAATCAT
66 ATCTGTTCTAATAAAAAAGGTAAAAAAATTCGAC-TTCAAATCAATTATGAGATTATAAAATCAT
* *
6441 TTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATAGACTTTTGTTACAAATGAA
130 TTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAA
* * *
6506 TGGCTTTTTCTTCATATTTCTTAAGGTAAATATTCAATTATAATCTGTTTTAGCCAATAATATAA
195 TGGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAA
* * * * *
6571 AAAATTTAACTTAAAATTAATTATGAGATTATCAAACTATTTTAAGCACGTAATAAGGCTTTGAA
260 AAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCTTTGAA
* * *
6636 AGGCATCGGTCACTATAAATAGACTTTTCTTGTCAATGATAACCTTTTTCATCATGTTTCTCGAG
325 AGGTATGGGTCACTATAAATAGACTTTTCTTGTCAATGATAGCCTTTTTCATCATGTTTCTCGAG
* * * * ***
6701 AAAAACATTCAATAATAATCTGTTTTCAATAAAAATGTAAAAACGTTTAACAAAAAATCAATTAC
390 AAAAACATTCAATAATAATCTGTTTTCAACAAAAACGTAAAAAAGTTCAACTTGAAATCAATTAC
* *
6766 CAAATTATAAAACCATTTAAAGCGAGTAATTATAATTTTTAACGCATGGGCAACTATA
455 CAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACTATA
* *
6824 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTGTCCATGCAGACATTCAATTATA
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTCAATTATA
*
6889 ATCTGTTCTAATAAAAAAGGTAAAAAAATTTGACTTCAAATCAATTATGAGATTATAAAATCATT
66 ATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCATT
* * * *
6954 TAAAGCGAGTAATTAGGCTGTCAAAGGCTTAAGTGACTAGGAATGGACTTTTGTTACCAATGAAT
131 TAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAAT
* * *
7019 GACTTTTTCTTCATGTTTTTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAAA
196 GGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAAA
* *
7084 AAATTCAACTTAAAATTAAATATGAGATTATAAAACCATTTCAAGTGCGTAATAAGGCTTTCG-A
261 AAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCTTT-GAA
*
7148 AGGTATGGGTCACTATAAATAGACTTTTCTTGTCAATTATAGCCTTTTTCATCATGTTTCTCGAG
325 AGGTATGGGTCACTATAAATAGACTTTTCTTGTCAATGATAGCCTTTTTCATCATGTTTCTCGAG
* * * * * *
7213 AAAGATATTCAATAATAATTTGTTTTCAATAAAAACGTAAAAAGGTTCAACTTGAAATCAATTAG
390 AAAAACATTCAATAATAATCTGTTTTCAACAAAAACGTAAAAAAGTTCAACTTGAAATCAATTAC
* *
7278 CAAATTATAAAACCATTTGAAGAGAGTAATTACT-ATTTTTAAGGCATGGGCAACTATA
455 CAAATTATAAAACCATTTAAAGCGAGTAATTA-TGATTTTTAAGGCATGGGCAACTATA
7336 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTCAATTATA
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTCAATTATA
* *
7401 ATCTGTTCTAATAAAAAAGGTGAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATTATT
66 ATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCATT
* * *
7466 TAAAACGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGATTTTTTTTTACCAATGAA
131 TAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGA-CTTTTGTTACCAATGAA
* *
7531 AGGCTTTTTCTTCATATTTCTTGAGGCAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAA
195 TGGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAA
********************************************** *
7596 AAAATTC--NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGCTTTCAA
260 AAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCTTTGAA
* * * **
7659 AGGTATGGGTAACTATAAAT-GAAC-TTTCTTGCCAATGA-ATGCATTTTTTTTTC-TCGTTT-T
325 AGGTATGGGTCACTATAAATAG-ACTTTTCTTGTCAATGATA-GC-CTTTTTCATCAT-GTTTCT
* ** * * * ** * * * *
7719 CCAAGGTAAACACTCAATTATAATATGTTTTC-ACTAAAAGTGTGAAACAACTT-AACATAAAAT
386 -CGAGAAAAACATTCAATAATAATCTGTTTTCAAC-AAAAACGT-AAAAAAGTTCAACTTGAAAT
* ** * * * * * * * * * *
7782 CAAGTATGAGATAATAAAATCATTTAAAGTGATTAATTACGATTTTGAAGGTATGGGTAACGATA
448 CAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACTATA
* * * * * *
7847 AATGGACTTTTCTTGCCAGTGAATAGCGTTTTCTTTATGTTT-TCTAAGGTAGACATTCAATTAT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAA-GCAGACATTCAATTAT
* * ** ** * * * * * *
7911 AATATGTTTTAACCAAAAACATAAAAAAAATC-ATCCTAAAATCAATTATAAGATTATAAATTTA
65 AATCTGTTCTAATAAAAAAGGTAAAAAAATTCGA-CTTCAAATCAATTATGAGATTATAAAATCA
* * * * * * * * * * * *
7975 CTTAAAGCGAGTCATTAGGCTTTTGAAGACATGGGTAACTATAAACGAACTTTTCTTGCCAATGA
129 TTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGA
* * * *** *
8040 ATGACTTTTTCCTCA-AGTTCCCAAGGTAGACT-TTCAATTATAATCTGTTTTA-ACAAAACATA
194 ATGGCTTTTTCTTCATATTTCTTGAGGTAGA-TATTCAATTATAATCTGTTTTAGCCAAAA-ATA
* * * * * *
8102 TAAAAAATTCAACATAAAATCAATTATGATATTATAAAATCATTTAAAGCGAGTAATAAGGCTTT
257 TAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCTTT
* * * * * * * * * *
8167 CAAAGGCATAGGG--ACTATGAATGGACTTTTCTTGCCTATGATAGCCTTTTTCTTAACGATTCT
322 GAAAGGTAT-GGGTCACTATAAATAGACTTTTCTTGTCAATGATAGCCTTTTTCATCATGTTTCT
* ** * * * * * * *
8230 TGAGGCAGACATTCAATTATAACCTGTTTTCACCAAAAATGTAAAAGAA-TTCAACCTAAAATCA
386 CGAGAAAAACATTCAATAATAATCTGTTTTCAACAAAAACGTAAAA-AAGTTCAACTTGAAATCA
** * * * * * * ** * ** *
8294 ATTATGAGATTATAAAACTATTTAAAGTGAGTGATTAGGCTTTCGAAGGCTTGGGTGACTAGA
450 ATTACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACTATA
*** * ** * * *
8357 AATGGACTTTTCTTGCCAATGAATGGTTTTTTCTCTTCACGTTTCTTGAGGTAGATATTCAATTA
1 AATGGACTTTTCTTGCCAATGAAT-AACTTTT-TCTTCATGTTTCTCCAAGCAGACATTCAATTA
* * * * ** * *
8422 TAAT-TTTTTTAACT-TAAAA--TATAAAAAATTCAACTAAAAATTAATTATGGGATTATAAAAT
64 TAATCTGTTCTAA-TAAAAAAGGTA-AAAAAATTCGACTTCAAATCAATTATGAGATTATAAAAT
* * * * * * ** ** * **
8483 CAATTCAAGTGTGTAATAAGGCTTTCAAAGGCACGAGCAACTATAAATGGACTTTTGTTGTCAAT
127 CATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAAT
* * * * * * *
8548 G-GTAGCCTTTTTCTTCATGTTTCCTGAGGTAGACATTCAATTATAATATGTTTTCA-TCAAAAA
192 GAAT-GGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTT-AGCCAAAAA
* * * * ** * *
8611 CATAAACAAATTC-ACTTTAAAATTAATTACGATATTATAAAACTA-TTGGAGCGAGTAATTACG
255 TATAAA-AAATTCAAC-TTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAA-TAAG
** * * * ** * **
8674 ATTTTG-AAGGCATGGGTAAC-AGTAAATGGACTTTTCTTACCAATGTATA-TCTTTTTTTTCAT
317 GCTTTGAAAGGTATGGGTCACTA-TAAATAGACTTTTCTTGTCAATG-ATAGCCTTTTTCATCAT
* ** * * * * ************
8736 GTTT-TCTAAGGTAGACATTCAATTATAATCTGTTTT-AATAAAAA-ATATANNNNNNNNNNNNN
380 GTTTCTC-GAGAAAAACATTCAATAATAATCTGTTTTCAACAAAAACGTA-A-AAAAGTTCAACT
****** ** * * * * * * * **
8798 NNNNNNCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCCTTGGTG
442 TGAAATCAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCA
8863 ACTATA
507 ACTATA
*** ** * * * * * *
8869 AATAGG-CTTTTCTTATGAATGAATGGCTTTTTCTTCAGGTTTC-CTTAGGTAGACATTCAACTG
1 AAT-GGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTC-CAAGCAGACATTCAATTA
* ** * * * * *
8932 TAATCTGGTT-TAGTAAAAATTGTAAAACAATTC-AATTTAAGGTC-ATTGGGTG-GATTATAAA
64 TAATCT-GTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAA-ATCAATT--ATGAGATTATAAA
* * * ** * * * *
8993 ACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG-TAAAAGTGACTATAAATGAACTTTTCTTGCC
125 ATCATTTAAAGCGAGTAATTAGGCTTTCGAAGGCT-TGAGTGACTAGAAATGGACTTTTGTTACC
** * * * * ** ***
9057 AATGAATATCTTTTTCTTCATGTTTCTCGGGGTAGACATTCAATTATAATCAATTTTAATGAAAA
189 AATGAATGGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAA
* * * * *
9122 ATATAAAAAAACATTTAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
254 ATAT--AAAAA-ATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAA
* *
9187 GG--TT------T-T---T--C--T---T--A-----C----CAATGAGT-GCCTCTTTCTTCAT
316 GGCTTTGAAAGGTATGGGTCACTATAAATAGACTTTTCTTGTCAATGA-TAGCCTTTTTCATCAT
* ** * * * * * * ** * * *
9221 GTTT-TCTTAGGCAGATATTCAACT-GTAATCTATTTTAACCAAAAATATAAAAAAATTTAAGTT
380 GTTTCTC-GAGAAAAACATTCAA-TAATAATCTGTTTTCAACAAAAACGTAAAAAAGTTCAACTT
* ** * * * * * * * ** **
9284 GAAATAAATTATGAGATTATAAAAACTTTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGGGTGA
443 GAAATCAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAA
9349 CTATA
508 CTATA
* * * * * * * ** *
9354 AATGTACTTTTCTTGCCATTGAATATCTTTCTCTTCACGTTTCTCGACGTTGACATTCAAATGA-
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTC-AATTAT
* * * * * * * * * *
9418 AATTTGTTTTAACAAAAAAAGTAAGACAATTCCACTTTAAATCAAGTATGAGATTATAAAACCAT
65 AATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCAT
* * * * * * *
9483 TTAAAGAGAGTAATAAGGCTCTT-GAATGCATTG-GTGACTATAATTGGACTTTTCTTGCCAATG
130 TTAAAGCGAGTAATTAGGCT-TTCGAAGGC-TTGAGTGACTAGAAATGGACTTTTGTTACCAATG
* ** * * *** * * * *
9546 AGTATCTTTTTTTTTCATGTTTCCCAAGGTTGACATTCAATTATAATATGTTTTAACCAAAAATG
193 AATGGC-TTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAAT-
* * * * **
9611 AAAAAAAAATT-AACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGCTAGTAATAAGGC-
256 -ATAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCT
*********************** * * *
9674 -NNNNNNNNNNNNNNNNNNNNNNNTA-A-------TG--AATG---GCTTTTTTTA-AACT-TTT
320 TTGAAAGGTATGGGTCACTATAAATAGACTTTTCTTGTCAATGATAGCCTTTTTCATCA-TGTTT
* ** * * * * * *
9723 CTTGAGGTAGACATTCAATTATAATTTCTTTT-AACAAAAAATGCAAAACAA-TTCAACTT-AAA
384 CTCGAGAAAAACATTCAATAATAATCTGTTTTCAAC-AAAAACGTAAAA-AAGTTCAACTTGAAA
* ** * * * * * * ** * **
9785 GTCCATTATGAGATTATAAAACCATTCAAAGAGAGTAATAAGGCTTTCGAAGGTATGGGTGACTA
447 -TCAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACTA
9850 TA
511 TA
* * *** * * *
9852 AATGGACTTTTCATACCAATGAATGGTTTTTTCTTCATGTTTAT-CAGGGTAGACATTCAATTAT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCA-AGCAGACATTCAATTAT
* ** * * * *
9916 AATCTGTTTTAACCAAAAATG-AAAACAAATTCAACTT-AAAGTCAATTATGAGATTATACAACC
65 AATCTGTTCTAATAAAAAAGGTAAAA-AAATTCGACTTCAAA-TCAATTATGAGATTATAAAATC
* * * * * * * ** *
9979 ATTTAAAGCGAGCAATAAGGCTTTTGAAGGCAT-AGGTGAGTATAAATGGACTTTTCTTGTCAGT
128 ATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGA-GTGACTAGAAATGGACTTTTGTTACCAAT
** * * * * **
10043 GAATATCTTTGTCTTCATGTTT-TTCGAGGTAGACATTCAATTATAATATGTTTTTA-TAAAAAA
192 GAATGGCTTTTTCTTCATATTTCTT-GAGGTAGATATTCAATTATAATCTG-TTTTAGCCAAAAA
* * * * * ** *
10106 TATAAAAAAATTCAACTTCAAATCAATTATGAGATTATAAAATCATTTAAATCAAGTAATAAGTC
255 TAT-AAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGC
* * * * ** * * * *
10171 TTTTG-AAGGCATAGGTAATTATAAATAGGTTTTTCTTG-CTAATGA-ATGGC-TTTTCTTAAGG
319 -TTTGAAAGGTATGGGTCACTATAAATAGACTTTTCTTGTC-AATGATA-GCCTTTTTCATCATG
* ** * * * * *
10232 TTTC-CATAGGCAGACATTCAACT-GTAATCTGTTTT-AATAAAAA-GTGAAAAAACATTTAACT
381 TTTCTC-GAGAAAAACATTCAA-TAATAATCTGTTTTCAACAAAAACGT-AAAAAA-GTTCAACT
* * * * * * ** * **
10293 T-AGAGTCAATTA-TAAGATTATAAAATCATTTAAAGCGAGTAATGAGGCTTTGGAAGGCGTAAG
442 TGA-AATCAATTACCAA-ATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGG
**
10356 TGACTATA
505 CAACTATA
* * ** * *
10364 AATGGACTTTTCTTGCCAACGAATATCTTTTTCTTCACATTTCT-TAAGGTAGACATTCAATTAT
1 AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAA-GCAGACATTCAATTAT
* * ** * * * *
10428 AATCTATTTTAATAAAAAATATAAAAAAAATCAATTTCAAATCAATTATGAGATTATAAAACCAT
65 AATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCAT
* * * * * *
10493 TTAAAGAGAGTAATAAGGCTTTTC-AAGGCTT-AGGTGACTATAAATAGACTTTTCTTGCCAAT-
130 TTAAAGCGAGTAATTAGGC-TTTCGAAGGCTTGA-GTGACTAGAAATGGACTTTTGTTACCAATG
* * ** * * * * * *
10555 AAGTAGCTTTTT-TTTAGGTTTCCTT-AGGCAGACATTCAACTATAATCT-ATTTAACTAAAAAT
193 AA-TGGCTTTTTCTTCATATTT-CTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAAT
* * * * * * * *
10617 GTAAAAAAATTCAATTTCAAGTCAATTAAGAGATTGTAAAACCATTTAAAGCAG-GTAATAAGGC
256 AT-AAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGC-GCGTAATAAGGC
* * * * * * *
10681 TTTTG-AAGGCATAGGTGATTATAAATGGACTTTTCTTG-CAAATGAATA-TCTTTTTCTTCATG
319 -TTTGAAAGGTATGGGTCACTATAAATAGACTTTTCTTGTC-AATG-ATAGCCTTTTTCATCATG
** * * * * * *
10743 TTTCT--AGGTAGACATTTAATTATAATC-GATTTTCATCAAAGATG-AAAATAA-TTCAACTT-
381 TTTCTCGAGAAAAACATTCAATAATAATCTG-TTTTCAACAAAAACGTAAAA-AAGTTCAACTTG
** * ** * * * ** * * **
10802 AAAGTCAATTATGAGA-TACTAAAACCATTTAAAGTAAGTAATAAGGCTTTGGAAGGTATAGGTG
444 AAA-TCAATTACCAAATTA-TAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCA
10866 ACTATA
507 ACTATA
* * * * * *
10872 AGA-GGACTTTTCTTACTAATGAATATCTTTTTCTTCATGTGTTCT--AAGGTAAACATTAAATT
1 A-ATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGT-TTCTCCAA-GCAGACATTCAATT
* * * * *
10934 ATAATCTGTTTTAATAAAAAATGTGAAAAAAATTCAACTTCAAATCAATTATGAGATTGTCAAAT
63 ATAATCTGTTCTAATAAAAAAGGT-AAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAAT
* * * * * * * * * * *
10999 CATTTAAAGCGAGCAATAAGGCTTCCAAAGGCATGGGTGACTATACATAGACTTTTCTTGCCAAT
127 CATTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAAT
* * * ** * * * *
11064 GAATGGCTTTTTCTTTATGTTTCTCGAGGTTCACATTTAATTATAATTTGTTTTAACCAAAAATA
192 GAATGGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATA
* * * * * *** *
11129 -AAAAAATAATTAACTTAAAGTCAATTATGAGATAATAAAACCATTTAAAGAAAGTAATAAAGCT
257 TAAAAAAT--TCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGC-
* * ** * * * *
11193 TTTG-AAGGCATGAGTGTCTATAAATAGACTTTTCTTGCCAATGAATA-TCTTTTTCTTAATGTT
319 TTTGAAAGGTATGGGTCACTATAAATAGACTTTTCTTGTCAATG-ATAGCCTTTTTCATCATGTT
* * * * * *
11256 T-T-GCATGACAGACATTCAA-ATTAATCTGTTTTGATA-AAAAATGTAAAAAAATTCAACTTGA
383 TCTCG-A-GAAAAACATTCAATAATAATCTGTTTTCA-ACAAAAACGTAAAAAAGTTCAACTTGA
** * * * * * * * * ** **
11317 AATC-ATTATGAGATTATAAAATCATTTAAAGCAAGTAATAAGGCTTTTGAAGGCTTAAGTGACT
445 AATCAATTACCAAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACT
11381 ATA
510 ATA
* * * * *
11384 AA-GAGGCTTTTCCTACCAATGAATATCTTTTTTTTCATGTTTCT-CAAGGCAGACATTCAATTA
1 AATG-GACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAA-GCAGACATTCAATTA
* * * ** * * * *
11447 TAATATGTTTTGATAAAAAATATAAAAAAATTCAAATTCAAATC-ATTATAAGATTATAAAACCA
64 TAATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCA
* * * * * * * * *
11511 TTTGAAGCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGACTTTTCTTTCTAATAA
129 TTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGA
** * ** * *
11576 ATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTTAATTATAATCTGTTTTA
194 ATGGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTA
Statistics
Matches: 5023, Mismatches: 1111, Indels: 459
0.76 0.17 0.07
Matches are distributed among these distances:
484 55 0.01
485 242 0.05
486 73 0.01
487 4 0.00
488 1 0.00
489 1 0.00
494 1 0.00
495 1 0.00
496 9 0.00
497 108 0.02
498 251 0.05
499 13 0.00
501 2 0.00
502 5 0.00
503 1 0.00
506 1 0.00
507 5 0.00
508 140 0.03
509 199 0.04
510 570 0.11
511 1251 0.25
512 1529 0.30
513 139 0.03
514 36 0.01
515 13 0.00
534 1 0.00
535 363 0.07
536 7 0.00
537 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (512 bp):
AATGGACTTTTCTTGCCAATGAATAACTTTTTCTTCATGTTTCTCCAAGCAGACATTCAATTATA
ATCTGTTCTAATAAAAAAGGTAAAAAAATTCGACTTCAAATCAATTATGAGATTATAAAATCATT
TAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATGGACTTTTGTTACCAATGAAT
GGCTTTTTCTTCATATTTCTTGAGGTAGATATTCAATTATAATCTGTTTTAGCCAAAAATATAAA
AAATTCAACTTAAAATTAATTATGAGATTATAAAACCATTTCAAGCGCGTAATAAGGCTTTGAAA
GGTATGGGTCACTATAAATAGACTTTTCTTGTCAATGATAGCCTTTTTCATCATGTTTCTCGAGA
AAAACATTCAATAATAATCTGTTTTCAACAAAAACGTAAAAAAGTTCAACTTGAAATCAATTACC
AAATTATAAAACCATTTAAAGCGAGTAATTATGATTTTTAAGGCATGGGCAACTATA
Found at i:9216 original size:143 final size:141
Alignment explanation
Indices: 9069--9329 Score: 353
Period size: 141 Copynumber: 1.8 Consensus size: 141
9059 TGAATATCTT
* * * **
9069 TTTCTTCATG-TTTCTCGGGGTAGACATTCAATTATAATCAATTTTAATGAAAAATATAAAAAAA
1 TTTCTTCATGTTTTCT-GAGGCAGACATTCAACTATAATCAATTTTAACCAAAAATAT-AAAAAA
* *
9133 CATTTAACTTCAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGTTTTTCTTA
64 -ATTTAACTTCAAATAAATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGGTTTTTCTTA
9198 CCAATGAGTGCCTC
128 CCAATGAGTGCCTC
* * * *
9212 TTTCTTCATGTTTTCTTAGGCAGATATTCAACTGTAATCTATTTTAACCAAAAATATAAAAAAAT
1 TTTCTTCATGTTTTCTGAGGCAGACATTCAACTATAATCAATTTTAACCAAAAATATAAAAAAAT
* * * *
9277 TTAAGTTGAAATAAATTATGAGATTATAAAAACTTTTAAAGTGAGTAATAAGG
66 TTAACTTCAAATAAATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGG
9330 CTTTCGAAGG
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
141 49 0.48
142 6 0.06
143 42 0.41
144 5 0.05
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (141 bp):
TTTCTTCATGTTTTCTGAGGCAGACATTCAACTATAATCAATTTTAACCAAAAATATAAAAAAAT
TTAACTTCAAATAAATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGGTTTTTCTTACCA
ATGAGTGCCTC
Found at i:9488 original size:171 final size:172
Alignment explanation
Indices: 9269--9673 Score: 469
Period size: 172 Copynumber: 2.4 Consensus size: 172
9259 CCAAAAATAT
* * * * * * *
9269 AAAAAAATTTAAGTTGAAATAAATTATGAGATTATAAAAACTTTTAAAGTGAGTAATAAGGCT-T
1 AAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTCT
* *
9333 TCGAAGGCATGGGTGACTATAAATGTACTTTTCTTGCCATTGAATATC-TTTCTCTTCACGTTTC
66 T-GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTCTCTTCACGTTTC
* * *
9397 TCGACGTTGACATTCAAATGA-AATTTGTTTTAACAAAAAAAG-
130 CCAACGTTGACATTC-AATGATAATATGTTTTAACAAAAAAAGA
* * * * * * *
9439 TAAGACAATTCCACTTTAAATCAAGTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTC
1 AAAAAAAATT-AACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTC
* * * * * * *
9504 TTGAATGCATTGGTGACTATAATTGGACTTTTCTTGCCAATGAGTATCTTTTTTTTTCATGTTTC
65 TTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTCTCTTCACGTTTC
* * * *
9569 CCAAGGTTGACATTCAATTATAATATGTTTTAACCAAAAATGA
130 CCAACGTTGACATTCAATGATAATATGTTTTAACAAAAAAAGA
9612 AAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGCT-AGTAATAAGGC
1 AAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAG-TGAGTAATAAGGC
9674 NNNNNNNNNN
Statistics
Matches: 194, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
170 6 0.03
171 89 0.46
172 92 0.47
173 7 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (172 bp):
AAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTCT
TGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTCTCTTCACGTTTCC
CAACGTTGACATTCAATGATAATATGTTTTAACAAAAAAAGA
Found at i:9658 original size:172 final size:171
Alignment explanation
Indices: 9253--9673 Score: 481
Period size: 171 Copynumber: 2.5 Consensus size: 171
9243 CTGTAATCTA
* * * * * * *
9253 TTTTAACCAAAAAT-ATAAAAAAATTTAAGTTGAAATAAATTATGAGATTATAAAAACTTTTAAA
1 TTTTAACCAAAAATGA-AAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAA
* * *
9317 GTGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGTACTTTTCTTGCCATTGAATATCT
65 GAGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCT
* * *
9382 TTCTCTTCACGTTTCTCGACGTTGACATTCAAATGAAATTTG
130 TTCTCTTCACGTTTCCCAACGTTGACATTCAAATGAAATATG
* * * * * * * *
9424 TTTTAACAAAAAAAG-TAAGACAATTCCACTTTAAATCAAGTATGAGATTATAAAACCATTTAAA
1 TTTTAACCAAAAATGAAAAAAAAATT-AACTTAAAATCAACTATGAGATTATAAAACCATTTAAA
* * * *
9488 GAGAGTAATAAGGCTCTT-GAATGCATTGGTGACTATAATTGGACTTTTCTTGCCAATGAGTATC
65 GAGAGTAATAAGGCT-TTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATC
* * * * *
9552 TTTTTTTTTCATGTTTCCCAAGGTTGACATTC-AATTATAATATG
129 -TTTCTCTTCACGTTTCCCAACGTTGACATTCAAATGA-AATATG
9596 TTTTAACCAAAAATGAAAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAG
1 TTTTAACCAAAAATGAAAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAG
**
9661 CTAGTAATAAGGC
66 AGAGTAATAAGGC
9674 NNNNNNNNNN
Statistics
Matches: 206, Mismatches: 38, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
170 6 0.03
171 101 0.49
172 92 0.45
173 7 0.03
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
TTTTAACCAAAAATGAAAAAAAAATTAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAG
AGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATATCTT
TCTCTTCACGTTTCCCAACGTTGACATTCAAATGAAATATG
Found at i:9998 original size:171 final size:170
Alignment explanation
Indices: 9727--11628 Score: 2033
Period size: 171 Copynumber: 11.2 Consensus size: 170
9717 ACTTTTCTTG
* * * * *
9727 AGGTAGACATTCAATTATAATTTCTTTTAACAAAAAATGCAAAACAATTCAACTTAAAGTCCATT
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATG-AAAAAAATTCAACTTAAAGTCAATT
* * * * *
9792 ATGAGATTATAAAACCATTCAAAGAGAGTAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGG
* * * *
9857 ACTTTTCATACCAATGAATGGT-TTTTTCTTCATGTTTATCA
130 ACTTTTCTTGCCAATGAAT-ATCTTTTTCTTCATGTTTCTCA
* **
9898 GGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGAAAACAAATTCAACTTAAAGTCAATT
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAA-AAATTCAACTTAAAGTCAATT
* * *
9963 ATGAGATTATACAACCATTTAAAGCGAGCAATAAGGCTTTTGAAGGCATAGGTGAGTATAAATGG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGG
* * * * *
10028 ACTTTTCTTGTCAGTGAATATCTTTGTCTTCATGTTTTTCG
130 ACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
* * *
10069 AGGTAGACATTCAATTATAATATGTTTTTATAAAAAATATAAAAAAATTCAACTTCAAA-TCAAT
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT-GAAAAAAATTCAACTT-AAAGTCAAT
* * * * * *
10133 TATGAGATTATAAAATCATTTAAATCAAGTAATAAGTCTTTTGAAGGCATAGGTAATTATAAATA
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAAT-
* * ** * *
10198 GG-TTTTTCTTGCTAATGAATGGC-TTTTCTTAAGGTTTC-CA
128 GGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
* * * * * *
10238 TAGGCAGACATTCAACTGTAATCTGTTTTAATAAAAAGTGAAAAAACATTTAACTTAGAGTCAAT
1 -AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAA-ATTCAACTTAAAGTCAAT
* * * * * *
10303 TATAAGATTATAAAATCATTTAAAGCGAGTAATGAGGCTTTGGAAGGCGTAAGTGACTATAAATG
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATG
* ** *
10368 GACTTTTCTTGCCAACGAATATCTTTTTCTTCACATTTCTTA
129 GACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
* * * *
10410 AGGTAGACATTCAATTATAATCTATTTTAATAAAAAATATAAAAAAAATCAATTTCAAA-TCAAT
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT-GAAAAAAATTCAACTT-AAAGTCAAT
* * * *
10474 TATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTTCAAGGCTTAGGTGACTATAAATA
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATG
* * * *
10539 GACTTTTCTTGCCAAT-AAGTAGCTTTTT-TTTAGGTTTC-CTT
129 GACTTTTCTTGCCAATGAA-TATCTTTTTCTTCATGTTTCTC-A
* * * * *
10580 AGGCAGACATTCAACTATAATCT-ATTTAACT-AAAAATGTAAAAAAATTCAATTTCAAGTCAAT
1 AGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAAATG-AAAAAAATTCAACTTAAAGTCAAT
* * *
10643 TAAGAGATTGTAAAACCATTTAAAGC-AGGTAATAAGGCTTTTGAAGGCATAGGTGATTATAAAT
64 TATGAGATTATAAAACCATTTAAAGCGA-GTAATAAGGCTTTTGAAGGCATAGGTGACTATAAAT
*
10707 GGACTTTTCTTGCAAATGAATATCTTTTTCTTCATGTTTCT--
128 GGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
* * * * *
10748 AGGTAGACATTTAATTATAATC-GATTTTCATCAAAGATGAAAATAATTCAACTTAAAGTCAATT
1 AGGTAGACATTCAATTATAATCTG-TTTTAATAAAAAATGAAAAAAATTCAACTTAAAGTCAATT
** * *
10812 ATGAGA-TACTAAAACCATTTAAAGTAAGTAATAAGGCTTTGGAAGGTATAGGTGACTATAAGA-
65 ATGAGATTA-TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAA-AT
* *
10875 GGACTTTTCTTACTAATGAATATCTTTTTCTTCATGTGTTCT-A
128 GGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGT-TTCTCA
* *
10918 AGGTAAACATTAAATTATAATCTGTTTTAATAAAAAATGTGAAAAAAATTCAACTTCAAA-TCAA
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAA--TGAAAAAAATTCAACTT-AAAGTCAA
* * * * *** * *
10982 TTATGAGATTGTCAAATCATTTAAAGCGAGCAATAAGGCTTCCAAAGGCATGGGTGACTATACAT
63 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAAT
* ** * *
11047 AGACTTTTCTTGCCAATGAATGGCTTTTTCTTTATGTTTCTCG
128 GGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
** * * ** *
11090 AGGTTCACATTTAATTATAATTTGTTTTAACCAAAAAT-AAAAAAATAATTAACTTAAAGTCAAT
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAT--TCAACTTAAAGTCAAT
* ** * *
11154 TATGAGATAATAAAACCATTTAAAGAAAGTAATAAAGCTTTTGAAGGCAT-GAGTGTCTATAAAT
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAG-GTGACTATAAAT
* *
11218 AGACTTTTCTTGCCAATGAATATCTTTTTCTTAATGTTT-TGCA
128 GGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCT-CA
* ** * *
11261 TGACAGACATTCAAAT-TAATCTGTTTTGATAAAAAATGTAAAAAAATTCAACTTGAAA-TC-AT
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATG-AAAAAAATTCAACTT-AAAGTCAAT
* * * *
11323 TATGAGATTATAAAATCATTTAAAGCAAGTAATAAGGCTTTTGAAGGCTTAAGTGACTATAAA-G
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATG
* * * *
11387 AGGCTTTTCCTACCAATGAATATCTTTTTTTTCATGTTTCTCA
129 -GACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
* * * * *
11430 AGGCAGACATTCAATTATAATATGTTTTGATAAAAAATATAAAAAAATTCAAATTCAAA-TC-AT
1 AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT-GAAAAAAATTCAACTT-AAAGTCAAT
* * * *
11493 TATAAGATTATAAAACCATTTGAAGCGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATG
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATG
* * *
11558 GACTTTTCTTTCTAATAAATATCTTTTTCTTCATGTTTCTCA
129 GACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
*
11600 AGGTAGACATTTAATTATAATCTGTTTTA
1 AGGTAGACATTCAATTATAATCTGTTTTA
Statistics
Matches: 1448, Mismatches: 232, Indels: 103
0.81 0.13 0.06
Matches are distributed among these distances:
167 1 0.00
168 131 0.09
169 249 0.17
170 393 0.27
171 513 0.35
172 157 0.11
173 4 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (170 bp):
AGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAATTCAACTTAAAGTCAATTA
TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATAGGTGACTATAAATGGA
CTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTCA
Done.