Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397524.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2956.0, 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: 10174
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.32
Warning! 1356 characters in sequence are not A, C, G, or T
Found at i:1030 original size:172 final size:171
Alignment explanation
Indices: 837--1176 Score: 443
Period size: 172 Copynumber: 2.0 Consensus size: 171
827 NNNNNNNNNN
* *
837 ATTTAAAGTGAGTAATAAGGCTTTCGAAGGAACAAGTGACAAGAAATAGACTTTTCTTACC-AAT
1 ATTTAAAGTGAGTAATAAGGCTTTCGAAGGAACAAGAGACAAGAAACAGACTTTTCTT-CCAAAT
* ** * * *
901 GAATGCCTTTCTCTTCACGTTTCTCGTTGTAGACATTCAATTATAATTTGTTTTAACCAATAAAG
65 GAATGCATTTCTCTTCACGTTTCTCGAGGAAGACATTCAATTATAATCTGTTTTAA-CAAGAAA-
966 TA-AAAAAAATTGAAA-ATAAAATCAATTTTGAGATTATAAACCA
128 TATAAAAAAATT-AAACATAAAATCAATTTTGAGATTATAAACCA
* * * * *
1009 ATTTAAAGTGAGTAATAAGGCTTTTGATGGAATAAGAGACTATAAACAGACTTTTCTTCCAAATG
1 ATTTAAAGTGAGTAATAAGGCTTTCGAAGGAACAAGAGACAAGAAACAGACTTTTCTTCCAAATG
* *** * *
1074 AATGCATTTTTCTTGGTGTTTCTCGAGGAAGACATTCAATTATAGTCTGTTTTAACGAGAAATAT
66 AATGCATTTCTCTTCACGTTTCTCGAGGAAGACATTCAATTATAATCTGTTTTAACAAGAAATAT
*
1139 AAAAAAATTAAACTTAAAATCAATTTTGAGATTATAAA
131 AAAAAAATTAAACATAAAATCAATTTTGAGATTATAAA
1177 ATCATNNNNN
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
170 5 0.03
171 40 0.28
172 100 0.69
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (171 bp):
ATTTAAAGTGAGTAATAAGGCTTTCGAAGGAACAAGAGACAAGAAACAGACTTTTCTTCCAAATG
AATGCATTTCTCTTCACGTTTCTCGAGGAAGACATTCAATTATAATCTGTTTTAACAAGAAATAT
AAAAAAATTAAACATAAAATCAATTTTGAGATTATAAACCA
Found at i:2479 original size:171 final size:171
Alignment explanation
Indices: 2302--6250 Score: 1515
Period size: 171 Copynumber: 23.1 Consensus size: 171
2292 NNNNNNNNNN
*
2302 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTTTGAAGAAATAGGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* *********
2367 TATAAATGGACTTTTTTTTCCATTGAAT-CTATTTTTCTTCATGTTTCTTGAGGTANNNNNNNNN
66 TATAAATGGACTTTTTTTGCCATTGAATCCT-TTTTTCTTCATGTTTCTTGAGGTAGACAGTCAA
* * *
2431 NTATACTCTGTTTTAACAAAAAATGTAAATAAATTTAACTTA
130 GTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * *
2473 AAATCAATTATGAGATTAT-AAACCATTTAAAGTGACTAATAAGGCTTTTGAAGAAATTGGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGA-
* * * *
2537 CCA-AAATGGACTTTCTTTGCTATTGAATCCTTTTTTCTTTATGTTTCTTGAGGTAGACAGTCAA
65 CTATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCAA
* *
2601 GTATAGTCTGTTTTAACCAAAAACGTAAAAAAATTTAACTTA
130 GTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * * *
2643 AAATCAATTATGAGATTATAAAACCATTTCAAGCGAGTAATAAGTCTTTTGAAAAAATAAGAGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * *** *
2708 TATAAATGGACTTTTCTT-CCAAATGAATGCGTTTTTT-TTTATGTTTCCCAAGGTAGACATTCA
66 TATAAATGGACTTTTTTTGCC-ATTGAAT-CCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCA
* * * ** * *
2771 ATTATAGTCTGTTTTCATGAAAAACAT-AAAAAATTGAACTTA
129 AGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
********** * * * *
2813 AAATCAATTNNNNNNNNNNAAAACCATTTAAAGCGAATAATAAAGCTTTTAAAGAAATAAGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * *
2878 TATAAATGGACTTTTCTTGTCAATT-ACTAT-C-TTTTTCTTCACGTTTCCTGAGGTAGACA-TA
66 TATAAATGGACTTTTTTTG-CCATTGA--ATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGT-
* ** * * * * *
2939 CAATTATTGTTTGTTTTAATAAAAAATGTAAAATAATTTGACTTA
127 CAAGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * * * *
2984 AAATTAATTATGAGATTATAAAATCATTTAAAGTGAGTAATAAGGTTTTTAAAGGAAT-GGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* ** * * * * ** ** * ** **
3048 TGTAAATAAACTTTTCTTCCCAGTAAATAGTTACTTCTGCACAT-TTTC-TGAGCCA-AGCTTTC
66 TATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCT--TCATGTTTCTTGAGGTAGA-CAGTC
* * * * * * * *
3110 AATTGTAGTCTATTTTAATAAAAAATGTAAACAAATTCAACTTA
128 AAGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * **
3154 AAAGCAATTATGAGATTATAAAATCATTTAAA-CTGAGTAATATGGCTTTTGAAGAAAT-GAAAG
1 AAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAATAAGGCTTTTGAAGAAATAG-GTG
* * * * ** * * *
3217 ACTATAAATGGACTTTTCTT-CCAAATGAGT-ATATTTTTCTTCATGTTT-TCCATGGTTGTCAT
64 ACTATAAATGGACTTTTTTTGCC-ATTGAATCCT-TTTTTCTTCATGTTTCTTGA-GGTAGACAG
* * * * * * ** ** *
3279 TCAATTATAGTCTATTTTCACGAGAAATATAAAAAAATCAAACCTA
126 TCAAGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * * * ********** * *
3325 AAATCGATTTTGAGATTATAAAACTATTTAAAGCAAGTAACAANNNNNNNNNNGGAATGGGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * *
3390 TATAAATGGACTTTTCTT-CTTAATGACAAT-C-TTTTTCTTCATGTTTCTCGAGGTAGATA-TA
66 TATAAATGGACTTTTTTTGC-CATTG--AATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGT-
* ** * * * ** *
3451 CAATTATTTTCTATTTTAATC-AAAAATGTAAAATAATTCGACTCA
127 CAAGTATACTCTGTTTTAA-CAAAAAACGTAAAAAAATTTAACTTA
* * * * *
3496 AAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAACAAGGCTTTTCAA-AGAATGGGCGA
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGA-AATAGGTGA
* ** * * * ** *** * *
3560 CTGTAAATAAACTTTTCTTCCCAATGAATAGTTTTTTCTATACA--TTTCCCAAGTTA-AGCATT
65 CTATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCT-T-CATGTTTCTTGAGGTAGA-CAGT
* * * ** * * * *
3622 CAATTATAGTCCGTTTTAATGAAAAATGTAAACAAATTCAATTTA
127 CAAGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
**********
3667 AAATCAATTATGAGATTATAAAACNNNNNNNNNNGAGTAATAAGGCTTTTGAA-AGAATAGGTGA
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGA-AATAGGTGA
* * * * * * * * ** *
3731 CTATAAATAGACTTTTCTTACCGA-TAAATACTTTGTTCTTCAGGTTTGTCAAGGTAGACATTCA
65 CTATAAATGGACTTTTTTTGCC-ATTGAATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCA
* * * * *
3795 ATTATATTCTGTTTAAAC-AAAAATGTAAAAAAATTCAACTTA
129 AGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
************** * * *
3837 AAATCAATTATGAGATTATNNNNNNNNNNNNNNCGAGTAATAAGGCTTTTCAAGGAATGGGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * * * * * *
3902 TATAAATGGACTTTTCTTACCATTGAATCCCTTTTTCTTTATGTTTCCTAAGGTGGACATTCAAT
66 TATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCAAG
* * ** **********
3967 TATAGTCTGTTTTAACCAAAAATATAANNNNNNNNNNCTTA
131 TATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * * *
4008 AAATCAATTATGAGATTATAAAACCGTTTAAAGTGACTAATAAGGCTTTTGAAGGAATTGGTGA-
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* ** ** * ** * * *
4072 TGAAAAAAAAGACTTTCCTTGCCATTGAATCCCTTTTTCTTCACATTTCTTAAGGGAGACATTCA
66 T--ATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCA
* * ** ******
4137 ATTATAGTCTGTTTTAACAAAAAATATAAAAAAATTTNNNNNN
129 AGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
**** * ** * *
4180 NNNNCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTACGAAGGAATAAGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * *
4245 TATAAATGGACTTTTCTTGCCATTGAATTCCTTTTTT-GTCATGTTTCTT-ATGGTAGACATTCA
66 TATAAATGGACTTTTTTTGCCATTGAA-TCCTTTTTTCTTCATGTTTCTTGA-GGTAGACAGTCA
* * * *
4308 ATTATAGC-CTGTTTTAACTAAAAACATAAAAAAATTGAACTTA
129 AGTATA-CTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * * *
4351 AAATCAATTATGAAATTATAAAATCATTTAAAGCG-GATAATAAGGCTTTTGAAGAAATGGGAGN
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAG-TAATAAGGCTTTTGAAGAAATAGGTGA
********* * * * * * ** * *
4415 NNNNNNNNNGACTTTTCTT-CCAAATGAAT-ATATTTTCCTTCATATTTC-CCATGGTCGACATT
65 CTATAAATGGACTTTTTTTGCC-ATTGAATCCT-TTTTTCTTCATGTTTCTTGA-GGTAGACAGT
* * * * * * ** *
4477 CAATTATAGTCTATATTCACGAAAAATATAAAAAAATTCAACTTA
127 CAAGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * * ********** * * *
4522 AAATTAATTTTAAGATTATAAAACTATNNNNNNNNNNTAATAAGGCTTTTAAAGGAATGGGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * * *
4587 TATAAATGGA-TTTTTCTTGTCAATGACTAT-C-TTTTTCTTCCTATTTCTCGAGGTAGATA-TG
66 TATAAATGGACTTTTT-TTGCCATTGA--ATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGT-
* ** * * * * *
4648 CAATTATTGTCTGTTTGAA-ACAAAAATGTAAAATAATTCAAATTA
127 CAAGTATACTCTGTTTTAACA-AAAAACGTAAAAAAATTTAACTTA
********** * *
4693 AAATCAATTATGANNNNNNNNNNCCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGCGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * * * ** * ** ** * * *
4758 TGTAAATGAACTTTTCTTCCCAATAAATAGTTTTTTCTACACATTTC-CCAAGTCAGGCATTCAA
66 TATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCTTCATGTTTCTTGAGGT-AGACAGTCAA
* * * * * * ** * *
4822 TTATAGTCTATTTTGATAGAAAATATAAAAAAAATTCAATTTA
130 GTATACTCTGTTTTAACAAAAAACGT-AAAAAAATTTAACTTA
* * * *********** *
4865 AAATCAATGAGGAGATTATAAAACTATTTAAAANNNNNNNNNNGGCTTTTGAAGGAATAGGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* ** ** * * ** *
4930 TGTAAATGGACTTTCCTTATCAATAAATACC-TTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
66 TATAAATGGACTTTTTTTGCCATTGAAT-CCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCAA
* * * * * * *
4994 TTATAGTCTGTTTAAAC-AAAAATGTTAGAAAATTCAACTTA
130 GTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * * * * *
5035 AAATCAATTATCAGATCATAAAACCATTTAAAACGAGTAATAAGGCTTTTAAACAGATATGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * ** * * *
5100 TTTAAGTAGAATTTCTAGTG-CATTGACTCC-TTTTCCTTTATGTTTCTTGAGGT-GACA-TCTA
66 TATAAATGGACTTT-TTTTGCCATTGAATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTC-A
* * * * *
5161 AGCGTATAGTCTGTTTTAACTAAAAATGTAAACAAATTCAACTTA
129 A--GTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
* * * ** * * * *
5206 AAATCATTTATGAGATTAGAAAACTATTTAAAATGACTAATAAGGCTTTTGAAGGAATTGGTAAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * * * * * * * * *
5271 CATAACTAGACTTTTCTTGCTATTGAATCCCTTTTTCTTTACGTTTCTTAAGATAGACATTCAAT
66 TATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCAAG
* * *
5336 TATAGTCTGTTTTAATC-AAAAACGTAAAAAAATTCAACGTA
131 TATACTCTGTTTTAA-CAAAAAACGTAAAAAAATTTAACTTA
* * * *
5377 AAATCAATTATGAGATTATAAATCCATTTAAAGCGAGTAATAAGTCTTTTGAAGAAATAGGAGAT
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * * * * *
5442 TATAAATGGAC-TTTCTT-CCAAATGAAT-ATGTTTTTCTCCATGTTTCCTAATGTAGACATTCA
66 TATAAATGGACTTTTTTTGCC-ATTGAATCCT-TTTTTCTTCATGTTTCTTGAGGTAGACAGTCA
* * * ** ** *
5504 ATTATAGTCTGTTTTCATGAAAAATATAAAAAAATTCAACTTA
129 AGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
********** * * * *
5547 AAATCAATNNNNNNNNNNTAAAACCATTTAAAGCGAGTAATAATGCTTTTAAATAAATAGGCGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * * * * * ** * *
5612 TATAAATGGACTTTTCTTGTCAATGACTACTTTTTTCTCACAT-TTT-TCAAGATATACA-TACA
66 TATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCT-TCATGTTTCTTGAGGTAGACAGT-CA
* ** ** ** * *
5674 ATTATTGTCTGTTTTAATTAAAAATATAAAATAA-TTAGACTGA
129 AGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTA-ACTTA
* * * *
5717 AAATAAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGTTTTTGAA-AGAATAAGTGA
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGA-AATAGGTGA
* ** * * * ** * * *
5781 CTGTAAATAAACTTTTCTTGTCAATGAATAGTTTTTTCTACACAT-TTTC-T-ATGTCA-AGCAT
65 CTATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCT--TCATGTTTCTTGAGGT-AGA-CAG
* * *
5842 TCAATTATAGTCTGTTTTAATCAAAAATA--TAAAAAAATTAAACTTA
126 TCAAGTATACTCTGTTTTAA-CAAAAA-ACGTAAAAAAATTTAACTTA
* * * * * *
5888 AAATTAGTTATGAGATTATAAAACTATTTAAAACGAATAATAAGACTTTTGAAGAAATAGGTGAC
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
* * *** * ** * *
5953 TATAAATGGACTTTTCTTACCAACAAATACC-TTTTTCTTCATATTTCTCAAGGTAGACATTAAA
66 TATAAATGGACTTTTTTTGCCATTGAAT-CCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCAA
* * * * * *****
6017 TTATAGTATGTTTAAACAAAAATA--TAAAAAAATTCANNNNN
130 GTATACTCTGTTTTAACAAAAA-ACGTAAAAAAATTTAACTTA
***** * * *
6058 NNNNNAATTATGAGATTATAAAACCATTTAAA-CTATGTAATAAGGCTTTTGAAGGAATGGGTGA
1 AAATCAATTATGAGATTATAAAACCATTTAAAGCGA-GTAATAAGGCTTTTGAAGAAATAGGTGA
* * * * * * * *
6122 CTATAAATAGACTTTTCTTACCATTGAATTCC-TTTTTCTTCTTATTTCTTAAGGTAGACATTTA
65 CTATAAATGGACTTTTTTTGCCATTGAA-TCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCA
* * * * * * *
6186 ATTATAGTCTATTTTAACCAAAAATGTAAATAAATTCAACTTA
129 AGTATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
*
6229 AAATCAATTTTGAGATTATAAA
1 AAATCAATTATGAGATTATAAA
6251 NNNNNNNNNN
Statistics
Matches: 2888, Mismatches: 771, Indels: 238
0.74 0.20 0.06
Matches are distributed among these distances:
167 2 0.00
168 8 0.00
169 54 0.02
170 1054 0.36
171 1425 0.49
172 325 0.11
173 18 0.01
174 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.35
Consensus pattern (171 bp):
AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGGTGAC
TATAAATGGACTTTTTTTGCCATTGAATCCTTTTTTCTTCATGTTTCTTGAGGTAGACAGTCAAG
TATACTCTGTTTTAACAAAAAACGTAAAAAAATTTAACTTA
Found at i:2784 original size:341 final size:340
Alignment explanation
Indices: 1856--6250 Score: 2673
Period size: 341 Copynumber: 12.9 Consensus size: 340
1846 ATTATGAGAT
* * * *
1856 TATAAATGGACTTTT-TTGTCTATGACTATCC--TTTTCTTCATGTTTCTCGA-GTAGATATAT-
1 TATAAATGGACTTTTCTTGCCAATGA--ATCCTTTTTTCTTCATGTTTCTCAAGGTAGACAT-TC
* * * * ****
1916 AATTATTGTCTGTTTTAATCGAAAATGTAAAATAATT-AGACTTAAAATCAATTATGAGATNNNN
63 AATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCA-ACTTAAAATCAATTATGAGATTATA
****** ** * * *
1980 NNNNNNTTTAAAGCGAGTAATAAGATTTTTAAAGGAATAGGTGACTGTAAA-CGAACTTTTCTTC
127 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAG-ACTTTTCTT-
** * ** ** * * * *
2044 CCAATGAATTATTTTTTCTACACATTTCTTGAGCTAGGCATTCAATTGTAGTCTGTTTTAATAAA
190 CCAATGAA-TCGTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAA
* ********** * *
2109 AAATGTAAAAAAANNNNNNNNNNAATCAATTATGAGATTATAAAACCATTTAAAACGAGAAATAA
254 AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * * *
2174 GGGTTTTCAACG-AATGGGTTAC
319 GGCTTTTGAA-GAAATAGGTGAC
* * * *
2196 TATAAATAGACTTTTCTTACCAATGAATACC-TTTCTCTTCATGTTTCTTAAGGTAGACATTCAA
1 TATAAATGGACTTTTCTTGCCAATGAAT-CCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
******************
2260 TTATAGTCTGTTTTAACCAAAAATANNNNNNNNNNNNNNNNNAAATCAATTATGAGATTATAAAA
65 TTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * *
2325 CCATTTAAAGCGAGTAACAAGGCTTTTGAAGAAATAGGTGACTATAAATGGACTTTTTTTTCCAT
130 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGAC-TTTTCTTCCAA
* ** ********** *
2390 TGAATCTATTTTTCTTCATGTTTCTTGAGGTANNNNNNNNNNTATACTCTGTTTTAACAAAAAAT
194 TGAATC-GTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAAT
* * * * *
2455 GTAAATAAATTTAACTTAAAATCAATTATGAGATTAT-AAACCATTTAAAGTGACTAATAAGGCT
258 ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
*
2519 TTTGAAGAAATTGGTGACC
323 TTTGAAGAAATAGGTGA-C
* * * * ** *
2538 CA-AAATGGAC-TTTCTTTGCTATTGAATCCTTTTTTCTTTATGTTTCTTGAGGTAGACAGTCAA
1 TATAAATGGACTTTTC-TTGCCAATGAATCCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
* * *
2601 GTATAGTCTGTTTTAACCAAAAACGTAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAA
65 TTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * ** * * *
2666 CCATTTCAAGCGAGTAATAAGTCTTTTGAAAAAATAAGAGACTATAAATGGACTTTTCTTCCAAA
130 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTTCC-AA
* * * * ** *
2731 TGAATGCGTTTTTTTTTATGTTTCCCAAGGTAGACATTCAATTATAGTCTGTTTTCATGAAAAAC
194 TGAAT-CGTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAAT
* ********** * *
2796 AT-AAAAAATTGAACTTAAAATCAATTNNNNNNNNNNAAAACCATTTAAAGCGAATAATAAAGCT
258 ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
* *
2860 TTTAAAGAAATAAGTGAC
323 TTTGAAGAAATAGGTGAC
* * * * *
2878 TATAAATGGACTTTTCTTGTCAATTACTAT-C-TTTTTCTTCACGTTTC-CTGAGGTAGACATAC
1 TATAAATGGACTTTTCTTGCCAATGA--ATCCTTTTTTCTTCATGTTTCTC-AAGGTAGACATTC
* * ** * ** *
2940 AATTATTGTTTGTTTTAATAAAAAATGTAAAATAATTTGACTTAAAATTAATTATGAGATTATAA
63 AATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * * *
3005 AATCATTTAAAGTGAGTAATAAGGTTTTTAAAGGAAT-GGTGACTGTAAATAAACTTTTCTTCCC
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTT-CC
* * * * * * ** * * * *
3069 AGTAAATAGTTACTTCTGCACAT-TTTCT-GAGCCA-AGCTTTCAATTGTAGTCTATTTTAATAA
192 AATGAATCGTT-TTTCT--TCATGTTTCTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAACAA
* * * *
3131 AAAATGTAAACAAATTCAACTTAAAAGCAATTATGAGATTATAAAATCATTTAAA-CTGAGTAAT
253 AAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAAT
* **
3195 ATGGCTTTTGAAGAAAT-GAAAGAC
317 AAGGCTTTTGAAGAAATAG-GTGAC
* * * * *
3219 TATAAATGGACTTTTCTT-CCAAATGAGT-ATATTTTTCTTCATGTTT-TCCATGGTTGTCATTC
1 TATAAATGGACTTTTCTTGCC-AATGAATCCT-TTTTTCTTCATGTTTCT-CAAGGTAGACATTC
* * * * * * * *
3281 AATTATAGTCTATTTTCACGAGAAATATAAAAAAA-TCAAACCTAAAATCGATTTTGAGATTATA
63 AATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTC-AACTTAAAATCAATTATGAGATTATA
* * * ********** * *
3345 AAACTATTTAAAGCAAGTAACAANNNNNNNNNNGGAATGGGTGACTATAAATGGACTTTTCTTCT
127 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTTC-
* * * * ** *
3410 TAATGACAATC-TTTTTCTTCATGTTTCTCGAGGTAGATATACAATTATTTTCTATTTTAATC-A
191 CAATG--AATCGTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAA-CAA
* * * * * *
3473 AAAATGTAAAATAATTCGACTCAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAACA
253 AAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * *
3538 AGGCTTTTCAA-AGAATGGGCGAC
318 AGGCTTTTGAAGA-AATAGGTGAC
* ** * ** * *
3561 TGTAAATAAACTTTTCTTCCCAATGAATAGTTTTTTCTATACA--TTTCCCAAGTTA-AGCATTC
1 TATAAATGGACTTTTCTTGCCAATGAATCCTTTTTTCT-T-CATGTTTCTCAAGGTAGA-CATTC
* ** * *
3623 AATTATAGTCCGTTTTAATGAAAAATGTAAACAAATTCAATTTAAAATCAATTATGAGATTATAA
63 AATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
********** *
3688 AACNNNNNNNNNNGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCTTACC
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTT-CC
* * * * * *
3753 GATAAATAC-TTTGTTCTTCAGGTTTGTCAAGGTAGACATTCAATTATATTCTGTTTAAAC-AAA
192 AATGAAT-CGTTT-TTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAAA
* **************
3816 AATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATNNNNNNNNNNNNNNCGAGTAATAAG
255 AATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
* * *
3881 GCTTTTCAAGGAATGGGTGAC
320 GCTTTTGAAGAAATAGGTGAC
* * * * *
3902 TATAAATGGACTTTTCTTACCATTGAATCCCTTTTTCTTTATGTTTC-CTAAGGTGGACATTCAA
1 TATAAATGGACTTTTCTTGCCAATGAATCCTTTTTTCTTCATGTTTCTC-AAGGTAGACATTCAA
* **********
3966 TTATAGTCTGTTTTAACCAAAAATATAANNNNNNNNNNCTTAAAATCAATTATGAGATTATAAAA
65 TTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * * * *
4031 CCGTTTAAAGTGACTAATAAGGCTTTTGAAGGAATTGGTGA-TGAAAAAAAAGACTTTCCTTGCC
130 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACT--ATAAATAGACTTTTCTT-CC
* * ** * *
4095 ATTGAATCCCTTTTTCTTCACATTTCTTAAGGGAGACATTCAATTATAGTCTGTTTTAACAAAAA
192 AATGAAT-CGTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAA
*********** *
4160 ATATAAAAAAATTTNNNNNNNNNNCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGG
256 ATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG
** * *
4225 CTTACGAAGGAATAAGTGAC
321 CTTTTGAAGAAATAGGTGAC
* * * *
4245 TATAAATGGACTTTTCTTGCCATTGAATTCCTTTTTT-GTCATGTTTCTTATGGTAGACATTCAA
1 TATAAATGGACTTTTCTTGCCAATGAA-TCCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
* * ** * *
4309 TTATAGCCTGTTTTAACTAAAAACATAAAAAAATTGAACTTAAAATCAATTATGAAATTATAAAA
65 TTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * **********
4374 TCATTTAAAGCG-GATAATAAGGCTTTTGAAGAAATGGGAGNNNNNNNNNNGACTTTTCTTCCAA
130 CCATTTAAAGCGAG-TAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTTCC-A
* * * * * * * * *
4438 ATGAAT-ATATTTTCCTTCATATTTCCCATGGTCGACATTCAATTATAGTCTATATTCACGAAAA
193 ATGAATCGT-TTTT-CTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAA
* * * * **********
4502 ATATAAAAAAATTCAACTTAAAATTAATTTTAAGATTATAAAACTATNNNNNNNNNNTAATAAGG
256 ATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG
* * *
4567 CTTTTAAAGGAATGGGTGAC
321 CTTTTGAAGAAATAGGTGAC
* * * * * * *
4587 TATAAATGGATTTTTCTTGTCAATGACTAT-C-TTTTTCTTCCTATTTCTCGAGGTAGATATGCA
1 TATAAATGGACTTTTCTTGCCAATGA--ATCCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCA
* * * * * *********
4650 ATTATTGTCTGTTTGAAACAAAAATGTAAAATAATTCAAATTAAAATCAATTATGANNNNNNNNN
64 ATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* * *
4715 NCCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGCGACTGTAAAT-GAACTTTTCTTCCC
129 ACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAG-ACTTTTCTT-CC
* * * ** * * * * * *
4779 AATAAATAGTTTTTTCTACACATTTCCCAA-GTCAGGCATTCAATTATAGTCTATTTTGATAGAA
192 AATGAATCG-TTTTTCTTCATGTTTCTCAAGGT-AGACATTCAATTATAGTCTGTTTTAACAAAA
* * * * ***********
4843 AATATAAAAAAAATTCAATTTAAAATCAATGAGGAGATTATAAAACTATTTAAAANNNNNNNNNN
255 AATAT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
*
4908 GGCTTTTGAAGGAATAGGTGAC
319 GGCTTTTGAAGAAATAGGTGAC
* * ** *
4930 TGTAAATGGACTTTCCTTATCAATAAATACC-TTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
1 TATAAATGGACTTTTCTTGCCAATGAAT-CCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
* * * * *
4994 TTATAGTCTG-TTTAAACAAAAATGTTAGAAAATTCAACTTAAAATCAATTATCAGATCATAAAA
65 TTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* ** * * * * *
5058 CCATTTAAAACGAGTAATAAGGCTTTT-AAACAGATATGTGACTTTAAGTAGA-ATTTCTAGTGC
130 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGA-ATAGGTGACTATAAATAGACTTTTCT--TCC
* * * * * ** * *
5121 ATTGACTCCTTTTCCTTTATGTTTCTTGAGGT-GACA-TCTAAGCGTATAGTCTGTTTTAACTAA
192 AATGAATCGTTTTTCTTCATGTTTCTCAAGGTAGACATTC-AA--TTATAGTCTGTTTTAACAAA
* * * * * ** *
5184 AAATGTAAACAAATTCAACTTAAAATCATTTATGAGATTAGAAAACTATTTAAAATGACTAATAA
254 AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* * *
5249 GGCTTTTGAAGGAATTGGTAAC
319 GGCTTTTGAAGAAATAGGTGAC
* * * * * * * * * *
5271 CATAACTAGACTTTTCTTGCTATTGAATCCCTTTTTCTTTACGTTTCTTAAGATAGACATTCAAT
1 TATAAATGGACTTTTCTTGCCAATGAATCCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAAT
* * * *
5336 TATAGTCTGTTTTAATCAAAAACGTAAAAAAATTCAACGTAAAATCAATTATGAGATTATAAATC
66 TATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* * * * *
5401 CATTTAAAGCGAGTAATAAGTCTTTTGAAGAAATAGGAGATTATAAATGGAC-TTTCTTCCAAAT
131 CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTTCC-AAT
* * * * **
5465 GAATATGTTTTTCTCCATGTTTC-CTAATGTAGACATTCAATTATAGTCTGTTTTCATGAAAAAT
195 GAAT-CGTTTTTCTTCATGTTTCTC-AAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAAT
********** *
5529 ATAAAAAAATTCAACTTAAAATCAATNNNNNNNNNNTAAAACCATTTAAAGCGAGTAATAATGCT
258 ATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
* * *
5594 TTTAAATAAATAGGCGAC
323 TTTGAAGAAATAGGTGAC
* * * * * * *
5612 TATAAATGGACTTTTCTTGTCAATGACTACTTTTTTCTCACAT-TTT-TCAAGATATACATACAA
1 TATAAATGGACTTTTCTTGCCAATGAATCCTTTTTTCT-TCATGTTTCTCAAGGTAGACATTCAA
* ** * * * *
5675 TTATTGTCTGTTTTAATTAAAAATATAAAATAATT-AGACTGAAAATAAATTATGAGATTATAAA
65 TTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCA-ACTTAAAATCAATTATGAGATTATAAA
* * * * * * *
5739 ATCATTTAAAGCGAGTAATAAGGTTTTTGAAAGAATAAGTGACTGTAAATAAACTTTTCTTGTCA
129 ACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTT-CCA
* * ** * *
5804 ATGAATAGTTTTTTCTACACATTT-TCTATGTCA-AGCATTCAATTATAGTCTGTTTTAATC-AA
193 ATGAATCG-TTTTTCTTCATGTTTCTCAAGGT-AGA-CATTCAATTATAGTCTGTTTTAA-CAAA
* * * * * *
5866 AAATATAAAAAAATTAAACTTAAAATTAGTTATGAGATTATAAAACTATTTAAAACGAATAATAA
254 AAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
*
5931 GACTTTTGAAGAAATAGGTGAC
319 GGCTTTTGAAGAAATAGGTGAC
* ** * *
5953 TATAAATGGACTTTTCTTACCAACAAATACC-TTTTTCTTCATATTTCTCAAGGTAGACATTAAA
1 TATAAATGGACTTTTCTTGCCAATGAAT-CCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
* * * **********
6017 TTATAGTATG-TTTAAACAAAAATATAAAAAAATTCANNNNNNNNNNAATTATGAGATTATAAAA
65 TTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* *
6081 CCATTTAAA-CTATGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTACCA
130 CCATTTAAAGCGA-GTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTT-CCA
* * * * * * * *
6145 TTGAATTCCTTTTTCTTCTTATTTCTTAAGGTAGACATTTAATTATAGTCTATTTTAACCAAAAA
193 ATGAA-TCGTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAA
* * *
6210 TGTAAATAAATTCAACTTAAAATCAATTTTGAGATTATAAA
257 TATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
6251 NNNNNNNNNN
Statistics
Matches: 3049, Mismatches: 887, Indels: 237
0.73 0.21 0.06
Matches are distributed among these distances:
339 11 0.00
340 255 0.08
341 1369 0.45
342 1047 0.34
343 350 0.11
344 17 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.35
Consensus pattern (340 bp):
TATAAATGGACTTTTCTTGCCAATGAATCCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAAT
TATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTTCCAATG
AATCGTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACAAAAAATATA
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
GAAGAAATAGGTGAC
Found at i:3772 original size:513 final size:501
Alignment explanation
Indices: 2619--3855 Score: 1120
Period size: 512 Copynumber: 2.4 Consensus size: 501
2609 TGTTTTAACC
* * * * * *
2619 AAAAACGTAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTCAAGC-GAGTAA
1 AAAAATGTAAACAAATTCAACTTAAAAGCAATTATGAGATTATAAAATCATTT-AAACTGAGTAA
* * * * *
2683 TAAGTCTTTTGAAAAAAT-AAGAGACTATAAATGGACTTTTCTTCCAAAT--GAATGCGTTTTTT
65 TAAGGCTTTTGAAGAAATGAA-AGACTATAAATAGACTTTTCTTCCAAATGAGAAT--ATTTTTC
* * ** * * ** * *
2745 TTTATGTTTCCCAAGGTAGACATTCAATTATAGTCTGTTTTCATGAAAAACAT-AAAAAATTGAA
127 TTCAGGTTTGTCAAGGTAGACATTCAATTATAGTCT-ATTTAAACAAAAATATAAAAAAATTCAA
* ********** * * * **
2809 CTTAAAATCAATTNNNNNNNNNNAAAACCATTTAAAGCGAATAATAAAGCTTTTAAAGAAATAAG
191 CCTAAAATCAATTATGAGATTATAAAACTATTTAAAGC--A-AGT-AA-C-----AAGGAATGGG
* * *
2874 TGACTATAAATGGACTTTTCTTGTCAATTACTATCTTTTTCTTCACGTTTCCTGAGGTAGACATA
246 TGACTATAAATGGACTTTTCTTCTCAATGACAATCTTTTTCTTCACGTTTCCTGAGGTAGACATA
* * * *
2939 CAATTATTGTTTGTTTTAATAAAAAATGTAAAATAATTTGACTTAAAATTAATTATGAGATTATA
311 CAATTATTGTTTATTTTAATAAAAAATGTAAAATAATTCGACTCAAAATCAATTATGAGATTATA
* * * * *
3004 AAATCATTTAAAGTGAGTAATAAGGTTTTTAAAGGAATGGTGACTGTAAATAAACTTTTCTTCCC
376 AAACCATTTAAAGCGAGTAACAAGGTTTTCAAAGGAATGGCGACTGTAAATAAACTTTTCTTCCC
* * * ** * * *
3069 AGTAAATAGTTACTTCTGCACATTTTCTGAGCCAAGCTTTCAATTGTAGTCTATTTTAATA
441 AATAAATAGTTACTTCTACACATTTCCCAAGCCAAGCATTCAATTATAGTCCATTTTAATA
3130 AAAAATGTAAACAAATTCAACTTAAAAGCAATTATGAGATTATAAAATCATTTAAACTGAGTAAT
1 AAAAATGTAAACAAATTCAACTTAAAAGCAATTATGAGATTATAAAATCATTTAAACTGAGTAAT
* * *
3195 ATGGCTTTTGAAGAAATGAAAGACTATAAATGGACTTTTCTTCCAAATGAGTATATTTTTCTTCA
66 AAGGCTTTTGAAGAAATGAAAGACTATAAATAGACTTTTCTTCCAAATGAGAATATTTTTCTTCA
* * * * ** *
3260 TGTTT-TCCATGGTTGTCATTCAATTATAGTCTATTTTCACGAGAAATATAAAAAAA-TCAAACC
131 GGTTTGT-CAAGGTAGACATTCAATTATAGTCTATTTAAAC-AAAAATATAAAAAAATTC-AACC
* *
3323 TAAAATCGATTTTGAGATTATAAAACTATTTAAAGCAAGTAACAANNNNNNNNNNGGAATGGGTG
193 TAAAATCAATTATGAGATTATAAAACTATTTAAAGCAAGTAACAA----------GGAATGGGTG
* * *
3388 ACTATAAATGGACTTTTCTTCTTAATGACAATCTTTTTCTTCATGTTT-CTCGAGGTAGATATAC
248 ACTATAAATGGACTTTTCTTCTCAATGACAATCTTTTTCTTCACGTTTCCT-GAGGTAGACATAC
* *
3452 AATTATT-TTCTATTTTAATCAAAAATGTAAAATAATTCGACTCAAAATCAATTATTAGATTATA
312 AATTATTGTT-TATTTTAATAAAAAATGTAAAATAATTCGACTCAAAATCAATTATGAGATTATA
3516 AAACCATTTAAAGCGAGTAACAAGGCTTTTCAAA-GAATGGGCGACTGTAAATAAACTTTTCTTC
376 AAACCATTTAAAGCGAGTAACAAGG-TTTTCAAAGGAAT-GGCGACTGTAAATAAACTTTTCTTC
* ** * ** * *
3580 CCAATGAATAGTTTTTTCTATACATTTCCCAAGTTAAGCATTCAATTATAGTCCGTTTTAATG
439 CCAATAAATAGTTACTTCTACACATTTCCCAAGCCAAGCATTCAATTATAGTCCATTTTAATA
* * *********
3643 AAAAATGTAAACAAATTCAATTTAAAATCAATTATGAGATTATAAAA-CNNNNNNNNNNGAGTAA
1 AAAAATGTAAACAAATTCAACTTAAAAGCAATTATGAGATTATAAAATC-ATTTAAACTGAGTAA
** *
3707 TAAGGCTTTTGAA-AGAAT-AGGTGACTATAAATAGACTTTTCTTACC-GAT-A-AATACTTTGT
65 TAAGGCTTTTGAAGA-AATGA-AAGACTATAAATAGACTTTTCTT-CCAAATGAGAATA-TTT-T
* * *
3767 TCTTCAGGTTTGTCAAGGTAGACATTCAATTATATTCTGTTTAAACAAAAATGTAAAAAAATTCA
125 TCTTCAGGTTTGTCAAGGTAGACATTCAATTATAGTCTATTTAAACAAAAATATAAAAAAATTCA
*
3832 ACTTAAAATCAATTATGAGATTAT
190 ACCTAAAATCAATTATGAGATTAT
3856 NNNNNNNNNN
Statistics
Matches: 591, Mismatches: 105, Indels: 59
0.78 0.14 0.08
Matches are distributed among these distances:
502 2 0.00
507 1 0.00
508 2 0.00
509 2 0.00
510 7 0.01
511 146 0.25
512 220 0.37
513 208 0.35
514 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.35
Consensus pattern (501 bp):
AAAAATGTAAACAAATTCAACTTAAAAGCAATTATGAGATTATAAAATCATTTAAACTGAGTAAT
AAGGCTTTTGAAGAAATGAAAGACTATAAATAGACTTTTCTTCCAAATGAGAATATTTTTCTTCA
GGTTTGTCAAGGTAGACATTCAATTATAGTCTATTTAAACAAAAATATAAAAAAATTCAACCTAA
AATCAATTATGAGATTATAAAACTATTTAAAGCAAGTAACAAGGAATGGGTGACTATAAATGGAC
TTTTCTTCTCAATGACAATCTTTTTCTTCACGTTTCCTGAGGTAGACATACAATTATTGTTTATT
TTAATAAAAAATGTAAAATAATTCGACTCAAAATCAATTATGAGATTATAAAACCATTTAAAGCG
AGTAACAAGGTTTTCAAAGGAATGGCGACTGTAAATAAACTTTTCTTCCCAATAAATAGTTACTT
CTACACATTTCCCAAGCCAAGCATTCAATTATAGTCCATTTTAATA
Done.