Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398776.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2059.0, 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: 10842
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.24
Warning! 3780 characters in sequence are not A, C, G, or T
Found at i:1959 original size:171 final size:171
Alignment explanation
Indices: 1578--3656 Score: 1159
Period size: 171 Copynumber: 12.2 Consensus size: 171
1568 NNNNNNNNNN
* ** * *
1578 ACTTAAAATCAATTATGTGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAGGAATGC
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * * * * * * * *
1643 GTGACTAT-AATGGACTTTTCATCTTAATTAATGTATTTTTCTTCATGTTTCTCGAGATAGACAT
66 GTGTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGACAT
* *
1707 TCAATAATAGTCTG-TTTAACAAAAAATGTAAAAACT-TTCA
131 TCAATTATAATCTGTTTTAACAAAAAATGTAAAAA-TATTCA
* * ********** *
1747 ACTTAAATTCAATAATAAGATTATGAAACCATTTAAAGCGAGTAATAAGGCTTNNNNNNNNNNGG
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * *
1812 GTGGT-TATAAATGGACTTTTCTTGTCAATGAATGCGTTTTTCTTCATATTTCTCAAGGTAGACA
66 GT-GTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGACA
* * *
1876 TTCAATTATAACCTGTTTTAACGAAAAATATAAAAATATTCA
130 TTCAATTATAATCTGTTTTAACAAAAAATGTAAAAATATTCA
* * * **
1918 ACTTAAAATAAATGATGAGATTATAAAACCATTTAAAGCGAGTAATAATTCTTTTGAAGGAATGA
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * * *
1983 GTGTCCATAAATGGACTTTT-TGTGCCAATGAATACCTTTTTTCTTCATGTTTCTTAAGGTAGAC
66 GTGTCCATAAATGGACTTTTCT-TGTCAATGAAT-GCATTTTTCTTCATGTTTCTCAAGGTAGAC
* *
2047 ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAACA-ATTCT
129 ATTCAATTATAATCTGTTTTAACAAAAAATGTAAAA-ATATTCA
* * * ** * *
2090 GCTTAAAATCAATTATAAGAATATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGCAATGG
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
** * ** * ** * * * * *
2155 GTAACTATAAATCAACATTTCTTACCAATGAAAGTC-TTTTTTTTTACGTTTCTC-GGCGTAGAC
66 GTGTCCATAAATGGACTTTTCTTGTCAATGAATG-CATTTTTCTTCATGTTTCTCAAG-GTAGAC
* * *
2218 ATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAACATTTA
129 ATTCAATTATAATCTGTTTTAACAAAAAATGT-AAAAATATTCA
* ** * **********
2262 ACTTAAAATCAATTATGTGATTATAAAACCATTTAAAGTGNNNNNNNNNNCTTTTGAAGGAAT-A
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * * *** ** * *
2326 GGTGACTAT-AATGGACTTTTCTTCTCAATGAACATATTTTTCTTCACATTTCTCGAGATAGACA
66 -GTGTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGACA
* * * * *
2390 TTCAATTATAGTCTG-GTTAATAAAAAATGTTAAGACT-TTCA
130 TTCAATTATAATCTGTTTTAACAAAAAATG-TAAAAATATTCA
* **********
2431 ACTTAAAATCAATAATGAGATTANNNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-A
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * * ** * *
2495 GGTGAT-TAAAAATGAACTTTTCTTACCAATGAATGCGTTTTTCTTCATGTTTTTCAAGGTAGAC
66 -GTG-TCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGAC
*
2559 ATTCAATTATAA-CATGTTTTAACTAAAAATGTAAAAATATTCA
129 ATTCAATTATAATC-TGTTTTAACAAAAAATGTAAAAATATTCA
* * **********
2602 ACTTAAAATCAATTATGAGATTANNNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * ** * * **
2667 GTGACTATAAATGGACTTTTCAAGCCAATGAATGTC-TTTTTCTTCACGTTTCTTGAGGTAGACA
66 GTGTCCATAAATGGACTTTTCTTGTCAATGAATG-CATTTTTCTTCATGTTTCTCAAGGTAGACA
* *
2731 TTCAATTTTAATCTGTTTTAACCAAAAATGTTAAAAA-ATTCA
130 TTCAATTATAATCTGTTTTAACAAAAAATG-TAAAAATATTCA
* * * * * ********** *
2773 GCTTAGAATCAATTATAAGAATATAAAACTATTTAAAGCGAGTAATAANNNNNNNNNNGGAATGG
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
** * * ** ** ** ** *
2838 GTAACTATAAATGAACTTTTCTTACCAATGAATGTTTTTTTCTTCACATTTCTCAAATTTGACAT
66 GTGTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGACAT
* * *
2903 TCAATTATAACCTGTTTTAACCAAAAATATAAAAATATTCA
131 TCAATTATAATCTGTTTTAACAAAAAATGTAAAAATATTCA
* * * * * ********** *
2944 ACTTAAAATTAATTATGAGATTTTAAAATCATTTAAAGCGAGTAATAAGGCTTNNNNNNNNNNGG
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
** * * * * * * *
3009 GTAACTATAAATCGACTTTTCTTCTCAATGAATGAATTTTTCTAT-ACGTTTCAT-AAGGCAGGC
66 GTGTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCT-TCATGTTTC-TCAAGGTAGAC
* * ** * * **
3072 AATCAATTATAGTCCATTTTAATAAAAAATGTAAAAAAATTTT
129 ATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAATATTCA
* * * * * * *
3115 ACTTAAAAGCCATTATTAGATTATAAAATCATTTAAAGCGAGTAATAAGACTTTTAAAGGAAT-A
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * * ** * *
3179 GGTGGCTATAAATGGACTTTTCTTGTCAATGAATCCCGTTTTCATCATGTTTCTCATGGTAGACA
66 -GTGTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGACA
* ********** *
3244 TTCAATTATAGTCTGTTTTNNNNNNNNNNGTAAAAAAATTCA
130 TTCAATTATAATCTGTTTTAACAAAAAATGTAAAAATATTCA
* * ** * * *
3286 ACTTAAAATAAATTATCTGATTATAAAACTATTTAAAGCGAGTAATAAGG-ATTTGAA--AAGGA
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
******* * * * * ** **
3348 NNNNNNNNNNTAAATAGACTTTTCTTGCCAATGGATGCCTTTTTTCTTCATGTTTCTTGACATAG
66 ---GTGTCCATAAATGGACTTTTCTTGTCAATGAATG-CATTTTTCTTCATGTTTCTCAAGGTAG
* * * *
3413 ACAATCAATTATAATCTGTTTTAACCAAAAAA-GTAAAAAAAATGA
127 ACATTCAATTATAATCTGTTTTAA-CAAAAAATGTAAAAATATTCA
* ** * * * * * *
3458 ACTTGAAATCAATTTTGAGATTATAAAATCATTTGAA-CTAAGTAATAAGACTTTTGAAGAAATG
1 ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGC-GAGTAATAAGGCTTTTGAAGGAATG
********** ** * * * *
3522 -NNNNNNNNNNATGGACTTTTCTTACCAATGAATGCGTTTTTCTTCACGTTTCTAAAAGTAGACA
65 AGTGTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGACA
* * ** * *
3586 TTCATTTATAGTCTGTTTTAATGAAAAATATAAAAATATTAA
130 TTCAATTATAATCTGTTTTAACAAAAAATGTAAAAATATTCA
* *
3628 ACTTAAAATCAATTATGAGATTATAAAAC
1 ACTTAAAATCAATAATAAGATTATAAAAC
3657 TATNNNNNNN
Statistics
Matches: 1476, Mismatches: 390, Indels: 87
0.76 0.20 0.04
Matches are distributed among these distances:
168 2 0.00
169 110 0.07
170 230 0.16
171 823 0.56
172 300 0.20
173 8 0.01
175 3 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (171 bp):
ACTTAAAATCAATAATAAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
GTGTCCATAAATGGACTTTTCTTGTCAATGAATGCATTTTTCTTCATGTTTCTCAAGGTAGACAT
TCAATTATAATCTGTTTTAACAAAAAATGTAAAAATATTCA
Found at i:2880 original size:512 final size:510
Alignment explanation
Indices: 1578--2996 Score: 1338
Period size: 512 Copynumber: 2.8 Consensus size: 510
1568 NNNNNNNNNN
** * ** * *
1578 ACTTAAAATCAATTATGTGATTATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAGGAATGC
1 ACTTAAAATCAATTATAAGAATATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* * * * *
1643 GTGACTAT-AATGGACTTTTCATCTTAATTAATGTATTTTTCTTCATGTTTCTCGAGATAGACAT
66 GTGACTATAAATGGACTTTTCA-C-CAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACAT
* * * *
1707 TCAATAATAGTCTG-TTTAACAAAAAATG-TAAAAACTTTCAACTTAAATTCAATAATAAGATTA
129 TCAATTATAATCTGTTTTAACAAAAAATGTTAAAAACATTCAACTTAAA-TCAATTATAAGATTA
* ********** **
1770 TGAAACCATTTAAAGCGAGTAATAAGGCTTNNNNNNNNNNGGGTGGTTATAAATGGACTTTTCTT
193 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT
* ** * * * *
1835 GTCAATGAATGCGTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACGA
258 -CCAATGAATGTATTTTTCTTCACATTTCTC-AGATAGACATTCAATTATAACCTGTGTTAACAA
*
1900 AAAATATAAAAATATTCAACTTAAAATAAATGATGAGATTATAAAACCATTTAAAGCGAGTAATA
321 AAAATATAAAAATATTCAACTTAAAATAAATAATGAGATTATAAAACCATTTAAAGCGAGTAATA
** * * * *
1965 ATTCTTTTGAAGGAATGAGTGTCCATAAATGGACTTTTTGTGCCAATGAATACCTTTTTTCTTCA
386 AGGCTTTTGAAGGAATGAGTGTCCAAAAATGAACTTTTTGTACCAATGAATACCGTTTTTCTTCA
*
2030 TGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAACAATTCT
451 TGTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAACAATTCA
* * *
2090 GCTTAAAATCAATTATAAGAATATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGCAATGG
1 ACTTAAAATCAATTATAAGAATATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
* ** * * * *
2155 GTAACTATAAATCAACATTTCTTACCAATGAAAGTCTTTTTTTTTACGTTTCTCG-GCGTAGACA
66 GTGACTATAAATGGAC-TTT-TCACCAATGAATGTCTTTTTCTTCACGTTTCTCGAG-GTAGACA
* * * **
2219 TTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAACATTTAACTTAAAATCAATTATGTGATT
128 TTCAATTATAATCTGTTTTAACAAAAAATGTTAAAAACATTCAACTT-AAATCAATTATAAGATT
* ********** *
2284 ATAAAACCATTTAAAGTGNNNNNNNNNNCTTTTGAAGGAATAGGTGACTAT-AATGGACTTTTCT
192 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
** ** *
2348 TCTCAATGAACATATTTTTCTTCACATTTCTCGAGATAGACATTCAATTATAGTCTG-GTTAATA
257 TC-CAATGAATGTATTTTTCTTCACATTTCTC-AGATAGACATTCAATTATAACCTGTGTTAACA
* * * * **********
2412 AAAAATGTTAAGACT-TTCAACTTAAAATCAATAATGAGATTANNNNNNNNNNTAAAGCGAGTAA
320 AAAAAT-ATAAAAATATTCAACTTAAAATAAATAATGAGATTATAAAACCATTTAAAGCGAGTAA
* *
2476 TAAGGCTTTTGAAGGAAT-AGGTGAT-TAAAAATGAACTTTTCT-TACCAATGAAT-GCGTTTTT
384 TAAGGCTTTTGAAGGAATGA-GTG-TCCAAAAATGAACTTTT-TGTACCAATGAATACCGTTTTT
*
2537 CTTCATGTTT-TTCAAGGTAGACATTCAATTATAA-CATGTTTTAACTAAAAATGTAAAA-ATAT
446 CTTCATGTTTCTT-AAGGTAGACATTCAATTATAATC-TGTTTTAACCAAAAATGTAAAACA-AT
2599 TCA
508 TCA
* * **********
2602 ACTTAAAATCAATTATGAGATTANNNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
1 ACTTAAAATCAATTATAAGAATATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
*
2667 GTGACTATAAATGGACTTTTCAAGCCAATGAATGTCTTTTTCTTCACGTTTCTTGAGGTAGACAT
66 GTGACTATAAATGGACTTTTC-A-CCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACAT
* * * *
2732 TCAATTTTAATCTGTTTTAACCAAAAATGTTAAAAA-ATTCAGCTTAGAATCAATTATAAGAATA
129 TCAATTATAATCTGTTTTAACAAAAAATGTTAAAAACATTCAACTTA-AATCAATTATAAGATTA
* ********** * *
2796 TAAAACTATTTAAAGCGAGTAATAANNNNNNNNNNGGAATGGGTAACTATAAATGAACTTTTCTT
193 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT
* * * * *
2861 ACCAATGAATGTTTTTTTCTTCACATTTCTCAAATTTGACATTCAATTATAACCTGTTTTAACCA
258 -CCAATGAATGTATTTTTCTTCACATTTCTCAGA-TAGACATTCAATTATAACCTGTGTTAACAA
* * * *
2926 AAAATATAAAAATATTCAACTTAAAATTAATTATGAGATTTTAAAATCATTTAAAGCGAGTAATA
321 AAAATATAAAAATATTCAACTTAAAATAAATAATGAGATTATAAAACCATTTAAAGCGAGTAATA
2991 AGGCTT
386 AGGCTT
2997 NNNNNNNNNN
Statistics
Matches: 711, Mismatches: 172, Indels: 47
0.76 0.18 0.05
Matches are distributed among these distances:
510 2 0.00
511 61 0.09
512 319 0.45
513 191 0.27
514 83 0.12
515 52 0.07
516 3 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (510 bp):
ACTTAAAATCAATTATAAGAATATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGA
GTGACTATAAATGGACTTTTCACCAATGAATGTCTTTTTCTTCACGTTTCTCGAGGTAGACATTC
AATTATAATCTGTTTTAACAAAAAATGTTAAAAACATTCAACTTAAATCAATTATAAGATTATAA
AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCCA
ATGAATGTATTTTTCTTCACATTTCTCAGATAGACATTCAATTATAACCTGTGTTAACAAAAAAT
ATAAAAATATTCAACTTAAAATAAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
TTTGAAGGAATGAGTGTCCAAAAATGAACTTTTTGTACCAATGAATACCGTTTTTCTTCATGTTT
CTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAACAATTCA
Found at i:3018 original size:342 final size:341
Alignment explanation
Indices: 1430--3656 Score: 1492
Period size: 342 Copynumber: 6.5 Consensus size: 341
1420 NNNNNNNNNN
* * * *
1430 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACAATAAATGAACTTTGCTTT
1 AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTA
* * ***
1495 CCAATGAATGTC-TTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTANNNN
66 CCAATGAATG-CGTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTA-ACA
******************* *
1559 NNNNNNNNNNNNNNNNNNNACTTAAAATCAATTATGTGATTATAAAACCATTTAAAGCGAGTAAT
129 AAAAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * *
1624 TAGGCTTTTGAAGGAATGCGTGACTAT-AATGGACTTTTCAT-CTTAATTAATGTATTTTTCTTC
194 AAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTC-TGC-CAATGAATATCTTTTTCTTC
* * * * * * * *
1687 ATGTTTCTCGAGATAGACATTCAATAATAGTCTG-TTTAACAAAAAATG-TAAAAACTTTCAACT
257 ACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAA-ATTCAGCT
* * *
1750 TAAATTCAATAATAAGATTAT
321 TAAAATCAATTATAAGAATAT
* * ********** *** * *
1771 GAAACCATTTAAAGCGAGTAATAAGGCTTNNNNNNNNNNGGGTGGTTATAAATGGACTTTTCTTG
1 AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTA
* * *
1836 TCAATGAATGCGTTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACGAA
66 CCAATGAATGCGTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACAAA
* *
1901 AAATATAAAAATATTCAACTTAAAATAAATGATGAGATTATAAAACCATTTAAAGCGAGTAATAA
131 AAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
** * * * * *
1966 TTCTTTTGAAGGAATGAGTGTCCATAAATGGACTTTTTGTGCCAATGAATACCTTTTTTCTTCAT
196 GGCTTTTGAAGGAATGAGTGACTATAAATGGAC-TTTTCTGCCAATGAATATC-TTTTTCTTCAC
* *
2031 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATG-TAAAACAATTCTGCTTA
259 GTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAA-AATTCAGCTTA
2095 AAATCAATTATAAGAATAT
323 AAATCAATTATAAGAATAT
* * * *
2114 AAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGCAATGGGTAACTATAAATCAACATTTCTTA
1 AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTA
* * * * * * *
2179 CCAATGAAAGTC-TTTTTTTTTACGTTTCTC-GGCGTAGACATTCAATTATAATCTGTTTTAATA
66 CCAATGAATG-CGTTTTTCTTCACATTTCTCAAG-GTAGACATTCAATTATAACCTGTTTTAACA
* * * * * *****
2242 AAAAATGTAAAAAACATTTAACTTAAAATCAATTATGTGATTATAAAACCATTTAAAGTGNNNNN
129 AAAAATAT-AAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
***** * * *
2307 NNNNNCTTTTGAAGGAAT-AGGTGACTAT-AATGGACTTTTCTTCTCAATGAACATATTTTTCTT
193 TAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTTTTCTGC-CAATGAATATCTTTTTCTT
* * * * * ** * ** *
2370 CACATTTCTCGAGATAGACATTCAATTATAGTCTG-GTTAATAAAAAATGTTAAGACTTTCAACT
256 CACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAAATTCAGCT
* * * *
2434 TAAAATCAATAATGAGATTAN
321 TAAAATCAATTATAAGAATAT
********* * * * *
2455 NNNNNNNNNTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGATTAAAAATGAACTTTTCTTA
1 AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTA
** * * *
2520 CCAATGAATGCGTTTTTCTTCATGTTTTTCAAGGTAGACATTCAATTATAACATGTTTTAACTAA
66 CCAATGAATGCGTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACAAA
* **********
2585 AAATGTAAAAATATTCAACTTAAAATCAATTATGAGATTANNNNNNNNNNTAAAGCGAGTAATAA
131 AAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* *
2650 GGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCAAGCCAATGAATGTCTTTTTCTTCACG
196 GGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTC-TGCCAATGAATATCTTTTTCTTCACG
* *
2715 TTTCTTGAGGTAGACATTCAATTTTAATCTGTTTTAACCAAAAATGTTAAAAAATTCAGCTTAGA
260 TTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAAATTCAGCTTAAA
2780 ATCAATTATAAGAATAT
325 ATCAATTATAAGAATAT
**********
2797 AAAACTATTTAAAGCGAGTAATAANNNNNNNNNNGGAATGGGTAACTATAAATGAACTTTTCTTA
1 AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTA
** ** * *
2862 CCAATGAATGTTTTTTTCTTCACATTTCTCAAATTTGACATTCAATTATAACCTGTTTTAACCAA
66 CCAATGAATGCGTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACAAA
* * *
2927 AAATATAAAAATATTCAACTTAAAATTAATTATGAGATTTTAAAATCATTTAAAGCGAGTAATAA
131 AAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
********** * * * * *
2992 GGCTTNNNNNNNNNNGGGTAACTATAAATCGACTTTTCTTCTCAATGAATGA-ATTTTTCTAT-A
196 GGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTGC-CAATGAAT-ATCTTTTTCT-TCA
* * * * * * ** ** * *
3055 CGTTTCATAAGGCAGGCAATCAATTATAGTCCATTTTAATAAAAAATGTAAAAAAATTTTA-CTT
258 CGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAAA-TTCAGCTT
* * * *
3119 AAAAGCCATTATTAGATTAT
322 AAAATCAATTATAAGAATAT
* * * ** *
3139 AAAA-TCATTTAAAGCGAGTAATAAGACTTTTAAAGGAATAGGTGGCTATAAATGGACTTTTCTT
1 AAAACT-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTT
** * * ** * ** ****
3203 GTCAATGAATCCCG-TTTTCATCATGTTTCTCATGGTAGACATTCAATTATAGTCTGTTTTNNNN
65 ACCAATGAAT-GCGTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACA
******* * * ** *
3267 NNNNNNGTAAAAAAATTCAACTTAAAATAAATTATCTGATTATAAAACTATTTAAAGCGAGTAAT
129 AAAAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * ******* * * **
3332 AAGG-ATTTGAA--AAGGANNNNNNNNNNTAAATAGACTTTTCTTGCCAATGGATGCCTTTTTTC
194 AAGGCTTTTGAAGGAATGA---GTGACTATAAATGGACTTTTC-TGCCAATGAATATC-TTTTTC
* ** * * * * * *
3394 TTCATGTTTCTTGACATAGACAATCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAAAATGAA
254 TTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAAATTCAG
* * * *
3459 CTTGAAATCAATTTTGAGATTAT
319 CTTAAAATCAATTATAAGAATAT
* * * * ********** *
3482 AAAA-TCATTTGAA-CTAAGTAATAAGACTTTTGAAGAAAT-GNNNNNNNNNNATGGACTTTTCT
1 AAAACT-ATTTAAAGC-GAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCT
* * * * ** **
3544 TACCAATGAATGCGTTTTTCTTCACGTTTCTAAAAGTAGACATTCATTTATAGTCTGTTTTAATG
64 TACCAATGAATGCGTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACA
*
3609 AAAAATATAAAAATATTAAACTTAAAATCAATTATGAGATTATAAAAC
129 AAAAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAAC
3657 TATNNNNNNN
Statistics
Matches: 1428, Mismatches: 423, Indels: 69
0.74 0.22 0.04
Matches are distributed among these distances:
339 1 0.00
340 124 0.09
341 318 0.22
342 653 0.46
343 266 0.19
344 66 0.05
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.34
Consensus pattern (341 bp):
AAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTAACTATAAATGAACTTTTCTTA
CCAATGAATGCGTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAACCTGTTTTAACAAA
AAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
GGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTGCCAATGAATATCTTTTTCTTCACGT
TTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAAATTCAGCTTAAAA
TCAATTATAAGAATAT
Done.