Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402367.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5448.0, 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, 967
Length: 1613
ACGTcount: A:0.19, C:0.07, G:0.08, T:0.20
Warning! 741 characters in sequence are not A, C, G, or T
Found at i:784 original size:170 final size:171
Alignment explanation
Indices: 488--824 Score: 405
Period size: 170 Copynumber: 2.0 Consensus size: 171
478 NNNNNNNTGC
*
488 CTTTTTCTTCATGTTTCTCGAGAAAAACATTCAATTATAGTCTATTTTAACCAAAATTGTAAAAG
1 CTTTTTCTACATGTTTCTCGAGAAAAACATTCAATTATAGTCTATTTTAACCAAAATTGTAAAAG
* * ********** *
553 AATTCAATTTAAAATCAATTATGAGATTATAAAACAATTNNNNNNNNNNAGCAAGGCTTTTGAAG
66 AATTCAACTTAAAATCAATTATAAGATTATAAAACAATTTAATGCGACTAACAAGGCTTTTGAAG
*
618 GAATGGGT-ACTTATAAATAAACTTTTCTTCTCAATGAATTA
131 GAATAGGTGAC-TATAAATAAACTTTTCTTCTCAATGAATTA
*** **
659 CTTTTTCTACATGTTTCTCGA-AACGGGCATTCAATTATAGTCTATTTTAATGAAAA-TGTAAAA
1 CTTTTTCTACATGTTTCTCGAGAA-AAACATTCAATTATAGTCTATTTTAACCAAAATTGTAAAA
722 -ACATTCAACTTAAAATCAATTATAAGATTATAAAATC-ATTTAATGCGACTAACAAGGCTTTTG
65 GA-ATTCAACTTAAAATCAATTATAAGATTATAAAA-CAATTTAATGCGACTAACAAGGCTTTTG
* *
785 AAGGAATAGGTGACTGTAAATGAACTTTTCTTCTCAATGA
128 AAGGAATAGGTGACTATAAATAAACTTTTCTTCTCAATGA
825 TNNNNNNNNN
Statistics
Matches: 140, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
169 1 0.01
170 89 0.64
171 50 0.36
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.35
Consensus pattern (171 bp):
CTTTTTCTACATGTTTCTCGAGAAAAACATTCAATTATAGTCTATTTTAACCAAAATTGTAAAAG
AATTCAACTTAAAATCAATTATAAGATTATAAAACAATTTAATGCGACTAACAAGGCTTTTGAAG
GAATAGGTGACTATAAATAAACTTTTCTTCTCAATGAATTA
Done.