Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402321.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5401.0, 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, 690
Length: 1151
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.26
Warning! 396 characters in sequence are not A, C, G, or T
Found at i:990 original size:171 final size:171
Alignment explanation
Indices: 663--991 Score: 455
Period size: 171 Copynumber: 1.9 Consensus size: 171
653 NNNNNNTGGC
* *
663 AAGAAAAGTCCATTTATACTCACTCATTCCTTCAAAAGCCTTATTACTCGCTTCAAAATGTTTTA
1 AAGAAAAGTCCATTTATACTCACCCATTCCTTCAAAAGCCTTATTAATCGCTTCAAAATGTTTTA
* * * *
728 TAATCACATAATTGACTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAACAGATTATAGTTGAA
66 TAATCACATAATTGACTTTAAGTTAAAGTTTTTTACATTTCTTGTTAAAACAGATTATAATTGAA
* * ** *
793 TCCCTATCTTGAGAAACATGAAGAAAAAAGTATTCGTAGAT
131 TACCTACCCCGAGAAACATAAAGAAAAAAGTATTCGTAGAT
* * * *
834 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTTAAAAGCCTTATTAATCGCTTTAAAA-GATTTT
1 AAGAAAAGTCCATTTATACTCACCCATTCCTTCAAAAGCCTTATTAATCGCTTCAAAATG-TTTT
* * *
898 ATAATCTCATAATTGAGTTTAAGTTAAAGTTTTTTACATTTCTTGTTAAAATAGATTATAATTGA
65 ATAATCACATAATTGACTTTAAGTTAAAGTTTTTTACATTTCTTGTTAAAACAGATTATAATTGA
*
963 ATATCTACCCCG-GTAAACATAAAGAAAAA
130 ATACCTACCCCGAG-AAACATAAAGAAAAA
992 GGTTTTCATT
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
170 2 0.01
171 135 0.99
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (171 bp):
AAGAAAAGTCCATTTATACTCACCCATTCCTTCAAAAGCCTTATTAATCGCTTCAAAATGTTTTA
TAATCACATAATTGACTTTAAGTTAAAGTTTTTTACATTTCTTGTTAAAACAGATTATAATTGAA
TACCTACCCCGAGAAACATAAAGAAAAAAGTATTCGTAGAT
Done.