Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397628.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3306.0, 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: 3723
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.33
Warning! 291 characters in sequence are not A, C, G, or T
Found at i:411 original size:171 final size:169
Alignment explanation
Indices: 1--2877 Score: 2059
Period size: 171 Copynumber: 16.8 Consensus size: 169
* **** * * **
1 TGAATGCCTTTTTCTTCATGTTTCTTGTCGTAGACATTCAATTATAATCTGTTTTCATAAAAAAT
1 TGAATG-CTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAAT
* * * *
66 GTATAAAACATTGAACTTAAAATCAATTTTGAGATTATGAAACCATTTAAAGTGAGTAATAAGGC
65 GTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAGGC
* * * *
131 TTTTGAAGGAATGGGTGACTAT-AATGGACTTTTCCTACCAA
128 TTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * * * * * *
172 TAAATG-TACTTTCTTCATGTTTTTCAAGGTAGATATTCAATTATTGTGTGTTTTAACCAAAAAT
1 TGAATGCT-TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAAT
** * *
236 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTGTTTACAACTAGTAACAAGGCT
65 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA-AAGTAGTAATAAGGCT
* * *
301 TTTTAAGGAATGAGAGACTATAAATAGACCTTTCTTGCCAA
129 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * * *
342 TGACTACATTTTTCTTCACGTTTCTCAAGGTACACATTCAATTATTGTTTGTTTTAACGAAAAAT
1 TGAATGC-TTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAAT
* * * * * * * *
407 GTAAAAAAATTAAACTTAAAGTTATTTATGAAATTATAAAATCATTTAAAGCGAGTAATAAAGCT
65 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-TAGTAATAAGGCT
** * * **
472 TTTGAAAAAATGAGAGACTATAAACGAACTTTTTCTTATCAA
129 TTTGAAGGAATGAGAGACTATAAATGGAC-TTTTCTTGCCAA
* * * ** * * * * *
514 TGAATGGCTTTTCCTACTCGTTTCTTGAGCTAAGA-ATTCAATTATTGTCTATTATAACAAAAAA
1 TGAAT-GCTTTTTCTTCACGTTTCTCAAGGT-AGACATTCAATTATAGTCTGTTTTAACGAAAAA
* * *
578 TATAAAAAAAATT-AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTGATTAGG
64 TGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAGG
* **
642 -TTTTGAAAGAATGAGTTACTATAAATGGACTTTTCTTGCCAA
127 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * * * * * * *
684 TGAATGCCTTTTCTTTACTTTTCTCGAGATAAACATTCAATTACTA-TTTATTTTAACTAAAAAT
1 TGAATGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTA-TAGTCTGTTTTAACGAAAAAT
* * *
748 GTAAAAAAAGAATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTGATAAG
65 GT--AAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAG
** * * *
813 GCTTTTGAAAAAATG-GTTGACTATAAATGGACTTTACTTGGCAA
126 GCTTTTGAAGGAATGAG-AGACTATAAATGGACTTTTCTTGCCAA
* ** * * * *
857 TGAATGCGTTTTTCTTCATGTTTCTTGAGGAAGACATTCAATTATTGTCTATTTTAACTAAAAAT
1 TGAATGC-TTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAAT
* * *
922 ATAAAAAAAATTGAACTTAAAATCAATTATGAGTTTATAAAACCATTTAAAGTGAGTAATAAGGC
65 GT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAGGC
* ***
987 TTTTGAAGAAATGAGAGACTATAAATGGACTTTTCTTTTGAA
128 TTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * * * * ** * * **
1029 TAAATGTGTTTTTCTACATGTTTTTCGAA-GCAGGTATTTAATTATATTCTGTTTTAGTGAAAAA
1 TGAATG-CTTTTTCTTCACGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAA
* * * *
1093 TATAAAAAAATTCAAATTAAAATCAATTATGAGATTATAAAACTATTTAAAGGGAGTAATAAGGC
64 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA-GTAGTAATAAGGC
* * * *
1158 TTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCTAA
128 TTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * ** * * *
1200 TGAATG-TCTTTTCTTCATGTTTGTTTAGGTAGACATTCAATCATAATCTGTTTTAATC-AATAA
1 TGAATGCT-TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAA-CGAAAAA
* ********** * * * *
1263 TGTAAAAAAAATTAAACNNNNNNNNNNTTTTGAGATTATAAAACCATTTACAGCGAGCAATAAGG
64 TGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-TAGTAATAAGG
* * * * **
1328 ATTTTGAAGGAATGGGAGACAATAAATAGACTTTTCTCACCAA
127 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * *
1371 TGAATGCTTTGTTTTTCACGTTTCTCGAA-GTAGACATTCAATT-TAGCCTATTTTAACTAAAAA
1 TGAATGCTTT-TTCTTCACGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAA
* * * * *
1434 TGTAAAAAAAATTCAACCTAAAATTAATTATGAGATTATAAAACTATTTAAAGCGAGCAATAAGG
64 TGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-TAGTAATAAGG
* * *
1499 CTTTAGAAGGAAT-AGGTGACTATAAATGGACTTTTCTT-CTGAA
127 CTTTTGAAGGAATGA-GAGACTATAAATGGACTTTTCTTGC-CAA
** * * * *
1542 TGAATGGATTTT-TTCACATGTTTCTCAAGGCA-AGCAATCAATTATAGTCTATTTTAATGAAAA
1 TGAATGCTTTTTCTTCAC--GTTTCTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAACGAAAA
* * * * *
1605 ATGT-AAACAATTCATCTTAAAATCAATAATGAGATTATAAAACTATTTAAAGTGAGTGATAAGG
63 ATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAGG
* * * * * *
1669 CTTCTGAAGGAATGGGTGGCTATAAATGAACTTTTCTT-CTCTA
127 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGC-CAA
* * * * *
1712 TGAATGGCTTTTTCTACACGTTT-TCTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAA
1 TGAAT-GCTTTTTCTTCACGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAA
*********** * *
1776 TGT-AAAAAATTCAANNNNNNNNNNNTTATGAGATTATAAAATCATTTAAAGTGAGTAATGAGGC
64 TGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAGGC
* * *
1840 TTTTGAAGGAATG-GAAGACTATAAATAGA-TTTTTTTACCAA
128 TTTTGAAGGAATGAG-AGACTATAAATGGACTTTTCTTGCCAA
* * * * *
1881 TGAATGACTTTTTCTACAGGTTTTTCGAGGTACGTAC--TCAATTTATAGTCTGTTTTAACTAAA
1 TGAATG-CTTTTTCTTCACGTTTCTCAAGGTA-G-ACATTCAA-TTATAGTCTGTTTTAACGAAA
* ********** * **
1944 AATGTAAACAAATTCAANNNNNNNNNNATTATGAGATTATAAAACCATTTAAAGAGAGTAATATT
62 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-TAGTAATAAG
* * * *
2009 GTTTTTGAAGCAATGGGAGACTATAAATGGACTGTTCTTGCCAA
126 GCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
** * * * * *
2053 TGAATTATTTTTTCTTCATGTTTCTCAAGGCAAACCTTCAATTATAGTCTGTTTTAACCAAAAAT
1 TGAA-TGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAAT
* * * * * * *
2118 GCAAAACAATTTAACTTAAAATCAGTTATGAGATTATAAAACTATTTAATGCAAGTAATAAGGCT
65 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-TAGTAATAAGGCT
********** *
2183 TTTGAAGGAATNNNNNNNNNNAAATGAACTTTTCTTGCCAA
129 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * *
2224 TGAATGACTTTTTCTACAC-TATTCGCAAGGTA-AGCATTCAATTATTGTCTGTTTTAATGAAAA
1 TGAATG-CTTTTTCTTCACGT-TTCTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAACGAAAA
* * *
2287 ATGTAAAACAAATTCAACTT-AAATAGAATCATGAGATTATAAAACCATTTAAGGCTAGTAATAA
63 ATGTAAAA-AAATTCAACTTAAAAT-CAATTATGAGATTATAAAACCATTTAAAG-TAGTAATAA
* * *
2351 GGCTTTTGAA-TATATGAGAGATTATAAATGGATTTTTCTT-CTCAA
125 GGCTTTTGAAGGA-ATGAGAGACTATAAATGGACTTTTCTTGC-CAA
* * * * **
2396 TAAATGGC--TTTCTCCATGCGTTT-TCCAAGGTAGACATTCAATTAAAGTCAGTTTTAATTAAA
1 TGAAT-GCTTTTTCTTCA--CGTTTCT-CAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAA
* ********** * ** *
2458 AATATAAAAAANNNNNNNNNNAAATCAATTATGAGATTGTAAAATTATTTAAAGTGAATAATAAG
62 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAG
* * * *
2523 GCTCTT-AAGAGAATGGGAGACTACAAATGGATTTTTCTT-CACAA
126 GCTTTTGAAG-GAATGAGAGACTATAAATGGACTTTTCTTGC-CAA
* * * * * *
2567 TGAATTCTTTTTTCTTCTCGTTTCTCGAGGTAGACA-TCAATTATGGTCTGTTTTAACCAAAAAG
1 TGAATGC-TTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAAT
********** *
2631 GTAAAAAAATTCAACTTAAAATCAATTNNNNNNNNNNAAAACCATTTAAAGCGAGTAATAAGGCT
65 GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-TAGTAATAAGGCT
* * * **
2696 TTTGAAGGAATTG-GTGAATATAAATAGACTTTTCTTATCAA
129 TTTGAAGGAA-TGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * **
2737 TGAATGGCTTTTTCTTCAAGTTTCTCAAGGTAGGCATTCAATTATAGTCTATTTTAATAAAAAAT
1 TGAAT-GCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAAT
* * *
2802 GTAAAAACAA-TCGACTTAAAATTAATTATGAGACTATAAAACCATTTAAAGTGAGTAATAAGG-
65 GTAAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-AGTAATAAGGC
*
2865 TTTTGAAAGAATG
128 TTTTGAAGGAATG
2878 GGTTACTATA
Statistics
Matches: 2142, Mismatches: 475, Indels: 180
0.77 0.17 0.06
Matches are distributed among these distances:
168 3 0.00
169 160 0.07
170 506 0.24
171 856 0.40
172 496 0.23
173 75 0.04
174 46 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (169 bp):
TGAATGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACGAAAAATG
TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAGTAATAAGGCTTT
TGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
Found at i:2831 original size:341 final size:343
Alignment explanation
Indices: 1--2889 Score: 2131
Period size: 343 Copynumber: 8.4 Consensus size: 343
* * **** * * *
1 TGAATGCCTTTTTCTTCATGTTTCTTGTCGTAGACATTCAATTATAATCTGTTTTCATAAAAAAT
1 TGAATGGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAAT
* * * *
66 GTATAAAACATTGAACTTAAAATCAATTTTGAGATTATGAAACCATTTAAAGTGAGTAATAAGGC
66 GTA-AAAA-AATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGC
* * * *
131 TTTTGAAG-GAATGGGTGACTAT-AATGGACTTTTCCT-ACCAATAAAT-G-TACTTTCTTCATG
129 TTTTGAAGAGAATGGGTGACTATAAATGGACTTTTCTTCA-CAATGAATGGCT-TTTTCTACATG
* * * *
191 TTTTTCAAGGTAGATATTCAATTATTGTGTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAA
192 TTTCTCGAGGTAGACATTCAATTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAA
** * * *
256 ATCAATTATGAGATTATAAAACTGTTTACAA-CTAGTAACAAGGCTTTTTAAGGAA-TGAGAGAC
257 ATCAATTATGAGATTATAAAACCATTTA-AAGCGAGTAATAAGGCTTTTGAAGGAATTGAGAGAC
* *
319 TATAAATAGACCTTTCTTGCCAA
321 TATAAATGGACTTTTCTTGCCAA
* * * * * *
342 TGACT-ACATTTTTCTTCACGTTTCTCAAGGTACACATTCAATTATTGTTTGTTTTAACGAAAAA
1 TGAATGGC-TTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAA
* * * * * * * *
406 TGTAAAAAAATTAAACTTAAAGTTATTTATGAAATTATAAAATCATTTAAAGCGAGTAATAAAGC
65 TGTAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGC
* * * * * *
471 TTTTGAA-AAAATGAGAGACTATAAACGAACTTTTTCTT-ATCAATGAATGGCTTTTCCTAC-TC
129 TTTTGAAGAGAATGGGTGACTATAAATGGAC-TTTTCTTCA-CAATGAATGGCTTTTTCTACAT-
* * * * * *
533 GTTTCTTGAGCTAAGA-ATTCAATTATTGTCTATTATAACAAAAAATATAAAAAAAATT-AACTT
191 GTTTCTCGAGGT-AGACATTCAATTATTGTCTGTTTTAACCAAAAATGT-AAAAAAATTCAACTT
** * * * **
596 AAAATCAATTATGAGATTATAAAACCATTTAAAGTAAGTGATTAGG-TTTTGAAAGAA-TGAGTT
254 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTGAGAG
659 ACTATAAATGGACTTTTCTTGCCAA
319 ACTATAAATGGACTTTTCTTGCCAA
* * * * * * * *
684 TGAAT-GCCTTTTCTTTACTTTTCTCGAGATAAACATTCAATTACTA-TTTATTTTAACT-AAAA
1 TGAATGGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTA-TAGTCTGTTTTAA-TGAAAA
* * *
746 ATGTAAAAAAAGAATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTGATA
64 ATGT--AAAAA-AA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATA
* * * ** *
811 AGGCTTTTGAA-AAAATGGTTGACTATAAATGGACTTTACTTGGCAATGAAT-GCGTTTTTCTTC
125 AGGCTTTTGAAGAGAATGGGTGACTATAAATGGACTTTTCTTCACAATGAATGGC-TTTTTCTAC
* * * * * *
874 ATGTTTCTTGAGGAAGACATTCAATTATTGTCTATTTTAACTAAAAATATAAAAAAAATTGAACT
189 ATGTTTCTCGAGGTAGACATTCAATTATTGTCTGTTTTAACCAAAAATGT-AAAAAAATTCAACT
* * *
939 TAAAATCAATTATGAGTTTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAA-GAAATGAGA
253 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTGAGA
***
1003 GACTATAAATGGACTTTTCTTTTGAA
318 GACTATAAATGGACTTTTCTTGCCAA
* * * * * ** * * *
1029 TAAATGTG-TTTTTCTACATGTTTTTCGAA-GCAGGTATTTAATTATATTCTGTTTTAGTGAAAA
1 TGAATG-GCTTTTTCTTCACGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAA
* * * *
1092 ATATAAAAAAATTCAAATTAAAATCAATTATGAGATTATAAAACTATTTAAAGGGAGTAATAAGG
64 ATGTAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGG
* * * *
1157 CTTTTAAAG-GAATGGGTGACTATAAATGGACTTTTCTTGC-TAATGAATGTC-TTTTCTTCATG
128 CTTTTGAAGAGAATGGGTGACTATAAATGGACTTTTCTT-CACAATGAATGGCTTTTTCTACATG
* ** * ** * * * ****
1219 TTTGTTTAGGTAGACATTCAATCATAATCTGTTTTAATCAATAATGTAAAAAAAATTAAACNNNN
192 TTTCTCGAGGTAGACATTCAATTATTGTCTGTTTTAACCAAAAATGT-AAAAAAATTCAACTTAA
****** * * * * *
1284 NNNNNNTTTTGAGATTATAAAACCATTTACAGCGAGCAATAAGGATTTTGAAGGAA-TGGGAGAC
256 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTGAGAGAC
* * **
1348 AATAAATAGACTTTTCTCACCAA
321 TATAAATGGACTTTTCTTGCCAA
* * *
1371 TGAAT-GCTTTGTTTTTCACGTTTCTCGAA-GTAGACATTCAATT-TAGCCTATTTTAACT-AAA
1 TGAATGGCTTT-TTCTTCACGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAA-TGAAA
* * * * *
1432 AATGTAAAAAAAATTCAACCTAAAATTAATTATGAGATTATAAAACTATTTAAAGCGAGCAATAA
63 AATGT-AAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * ** *
1497 GGCTTTAGAAG-GAATAGGTGACTATAAATGGACTTTTCTTCTGAATGAATGGATTTTT-TCACA
126 GGCTTTTGAAGAGAATGGGTGACTATAAATGGACTTTTCTTCACAATGAATGGCTTTTTCT-ACA
* * * * * ** * *
1560 TGTTTCTCAAGGCA-AGCAATCAATTATAGTCTATTTTAATGAAAAATGT-AAACAATTCATCTT
190 TGTTTCTCGAGGTAGA-CATTCAATTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTT
* * * * * * *
1623 AAAATCAATAATGAGATTATAAAACTATTTAAAGTGAGTGATAAGGCTTCTGAAGGAA-TGGGTG
254 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTGAGAG
* * *
1687 GCTATAAATGAACTTTTCTT-CTCTA
319 ACTATAAATGGACTTTTCTTGC-CAA
* * * *
1712 TGAATGGCTTTTTCTACACGTTT-TCTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAA
1 TGAATGGCTTTTTCTTCACGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAA
* *********** * *
1776 TGTAAAAAATTCAANNNNNNNNNNNTTATGAGATTATAAAATCATTTAAAGTGAGTAATGAGGCT
65 TGTAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
** * * * *
1841 TTTGAAG-GAATGGAAGACTATAAATAGA-TTTT-TTTACCAATGAATGACTTTTTCTACAGGTT
130 TTTGAAGAGAATGGGTGACTATAAATGGACTTTTCTTCA-CAATGAATGGCTTTTTCTACATGTT
* * * * *****
1903 TTTCGAGGTACGTAC--TCAATTTATAGTCTGTTTTAACTAAAAATGTAAACAAATTCAANNNNN
194 TCTCGAGGTA-G-ACATTCAA-TTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAA
***** * ** * * *
1966 NNNNNATTATGAGATTATAAAACCATTTAAAGAGAGTAATATTGTTTTTGAAGCAA-TGGGAGAC
256 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTGAGAGAC
*
2030 TATAAATGGACTGTTCTTGCCAA
321 TATAAATGGACTTTTCTTGCCAA
*** * * * * **
2053 TGAATTATTTTTTCTTCATGTTTCTCAAGGCAAACCTTCAATTATAGTCTGTTTTAACCAAAAAT
1 TGAATGGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAAT
* * * * * * **
2118 GCAAAACAATTTAACTTAAAATCAGTTATGAGATTATAAAACTATTTAATGCAAGTAATAAGGCT
66 GTAAAA-AAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
********** * * *
2183 TTTGAAG-GAATNNNNNNNNNNAAATGAACTTTTCTTGC-CAATGAATGACTTTTTCTACACT-A
130 TTTGAAGAGAATGGGTGACTATAAATGGACTTTTCTT-CACAATGAATGGCTTTTTCTACA-TGT
* * **
2245 TTCGCAAGGTA-AGCATTCAATTATTGTCTGTTTTAATGAAAAATGTAAAACAAATTCAACTT-A
193 TTCTCGAGGTAGA-CATTCAATTATTGTCTGTTTTAACCAAAAATGTAAAA-AAATTCAACTTAA
* * * * *
2308 AATAGAATCATGAGATTATAAAACCATTTAAGGCTAGTAATAAGGCTTTTGAA--TATATGAGAG
256 AAT-CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-TGAGAG
* *
2371 ATTATAAATGGATTTTTCTT-CTCAA
319 ACTATAAATGGACTTTTCTTGC-CAA
* * * * *
2396 TAAATGGC--TTTCTCCATGCGTTT-TCCAAGGTAGACATTCAATTAAAGTCAGTTTTAATTAAA
1 TGAATGGCTTTTTCTTCA--CGTTTCT-CAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAA
* ********* * ** *
2458 AATATAAAAAANNNNNNNNNNAAATCAATTATGAGATTGTAAAATTATTTAAAGTGAATAATAAG
63 AATGTAAAAAA-ATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAG
* * * * * *
2523 GCTCTT-AAGAGAATGGGAGACTACAAATGGATTTTTCTTCACAATGAAT-TCTTTTTTCTTC-T
127 GCTTTTGAAGAGAATGGGTGACTATAAATGGACTTTTCTTCACAATGAATGGC-TTTTTCTACAT
* *
2585 CGTTTCTCGAGGTAGACA-TCAATTATGGTCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTA
191 -GTTTCTCGAGGTAGACATTCAATTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTA
********** *
2649 AAATCAATTNNNNNNNNNNAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTG-GTGA
255 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTGAGAGA
* * **
2713 ATATAAATAGACTTTTCTTATCAA
320 CTATAAATGGACTTTTCTTGCCAA
* * * *
2737 TGAATGGCTTTTTCTTCAAGTTTCTCAAGGTAGGCATTCAATTATAGTCTATTTTAATAAAAAAT
1 TGAATGGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAAT
* * *
2802 GTAAAAACAATCGACTTAAAATTAATTATGAGACTATAAAACCATTTAAAGTGAGTAATAAGG-T
66 GTAAAAA-AATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
*
2866 TTTGAA-AGAATGGGTTACTATAAA
130 TTTGAAGAGAATGGGTGACTATAAA
2890 NNNNNNNNNN
Statistics
Matches: 1987, Mismatches: 475, Indels: 173
0.75 0.18 0.07
Matches are distributed among these distances:
338 2 0.00
339 35 0.02
340 177 0.09
341 532 0.27
342 475 0.24
343 544 0.27
344 145 0.07
345 40 0.02
346 35 0.02
347 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (343 bp):
TGAATGGCTTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAAT
GTAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTT
TTGAAGAGAATGGGTGACTATAAATGGACTTTTCTTCACAATGAATGGCTTTTTCTACATGTTTC
TCGAGGTAGACATTCAATTATTGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCA
ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATTGAGAGACTATAA
ATGGACTTTTCTTGCCAA
Done.