Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399969.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3196.0, 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: 2840
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.24
Warning! 963 characters in sequence are not A, C, G, or T
Found at i:740 original size:170 final size:170
Alignment explanation
Indices: 518--827 Score: 433
Period size: 170 Copynumber: 1.8 Consensus size: 170
508 CTGAAAACAA
* * *
518 AATTATGAGATTAAAAAACCACTTAGAGTGAACAATAAGGCTTTCGAAGGCATGGGTGACTACAA
1 AATTACGAGATTAAAAAACAACTTAAAGTGAACAATAAGGCTTTCGAAGGCATGGGTGACTACAA
* * ** * *
583 ATGGACCTTTT-TTTCCAAAGGATATCTTTTTCTTCATGTTTGTTAAGGCAGACGTTCAATTATA
66 ATGGA-CTTTTCTTGCCAAAGGATATCTTTTTCTTCACGTTTCCTAAGGCAAACATTCAATTATA
647 ATATGTTTTAATAAAAATATAAAAAAATTTAACTAAAAATC
130 ATATGTTTTAATAAAAATATAAAAAAATTTAACTAAAAATC
* * ** *
688 AATTACGAGATTACAAAACAATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGGGTGAGTACAA
1 AATTACGAGATTAAAAAACAACTTAAAGTGAACAATAAGGCTTTCGAAGGCATGGGTGACTACAA
** * *
753 ATGGACTTTTCTTGCCAGTGGATATGTTTTTCTTCACGTTTCCTGAGGCAAACATTCAATTATAA
66 ATGGACTTTTCTTGCCAAAGGATATCTTTTTCTTCACGTTTCCTAAGGCAAACATTCAATTATAA
*
818 TCTGTTTTAA
131 TATGTTTTAA
828 AAACANNNNN
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
169 5 0.04
170 115 0.96
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (170 bp):
AATTACGAGATTAAAAAACAACTTAAAGTGAACAATAAGGCTTTCGAAGGCATGGGTGACTACAA
ATGGACTTTTCTTGCCAAAGGATATCTTTTTCTTCACGTTTCCTAAGGCAAACATTCAATTATAA
TATGTTTTAATAAAAATATAAAAAAATTTAACTAAAAATC
Done.