Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402270.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5353.0, 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, 628
Length: 1047
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.26
Warning! 380 characters in sequence are not A, C, G, or T
Found at i:1037 original size:171 final size:171
Alignment explanation
Indices: 706--1047 Score: 434
Period size: 171 Copynumber: 2.0 Consensus size: 171
696 NNNNNNNNNC
* * *
706 TTGAATTTTTTTACATTTTTGATTAAAACAGACAATAATTGACAGTCTATCTCAAGAAACGTGAA
1 TTGAATTTGTTTACATTTTTGATTAAAACAGACAATAACTGACAGTCTATCTCAAGAAACATGAA
* ** * *
771 TACCAAAGTATTCATTGGTAAGGAAAGTCCATTTGTACTCATCCATTCCTTCAAAAGCCTTATTA
66 GAAAAAAGTATTCATTGCTAAGAAAAGTCCATTTGTACTCATCCATTCCTTCAAAAGCCTTATTA
**********
836 CTCACTTTAAATGGNNNNNNNNNNTCATAATTGATTTTAAG
131 CTCACTTTAAATGGTTTTATAATATCATAATTGATTTTAAG
* * * *
877 TTGAATTTGTTTATATTTTTGATTAAAGCAGACAATAACTGA-ATGTTTATCTCAAGAAATATGA
1 TTGAATTTGTTTACATTTTTGATTAAAACAGACAATAACTGACA-GTCTATCTCAAGAAACATGA
* * *
941 AGAAAAAAGTATTCATTGCTAAGAAAAGTCCATTTGTAGTCATCCATTCCTTTAAAAGTCTTATT
65 AGAAAAAAGTATTCATTGCTAAGAAAAGTCCATTTGTACTCATCCATTCCTTCAAAAGCCTTATT
*
1006 ACTCGCTTTAAATGGTTTTATAATATCATAATTGATTTTAAG
130 ACTCACTTTAAATGGTTTTATAATATCATAATTGATTTTAAG
Statistics
Matches: 144, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
170 1 0.01
171 143 0.99
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.37
Consensus pattern (171 bp):
TTGAATTTGTTTACATTTTTGATTAAAACAGACAATAACTGACAGTCTATCTCAAGAAACATGAA
GAAAAAAGTATTCATTGCTAAGAAAAGTCCATTTGTACTCATCCATTCCTTCAAAAGCCTTATTA
CTCACTTTAAATGGTTTTATAATATCATAATTGATTTTAAG
Done.