Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018400585.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3778.0, 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: 3178
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.13
Warning! 2054 characters in sequence are not A, C, G, or T
Found at i:2189 original size:169 final size:169
Alignment explanation
Indices: 1938--2248 Score: 403
Period size: 169 Copynumber: 1.8 Consensus size: 169
1928 TAGGTATTCT
* * * * * * *
1938 ATTATAGTCTGTTTTAACTAAAAATATAAAAAAATTTACTTAAAATCAATTATTAGATTATCAAA
1 ATTATAATCTGTTTTAACCAAAAATAGAAAAAAATTTACTGAAAATCAATTATGAGATCATAAAA
* * * ** * * *
2003 TGATTTAAATGGAGTAATAAGGCTCTTGAAAGAATGAGTGACTATAAGTGGACTTTTCTT-TCAA
66 TCAGTTAAATCGAGTAATAAACCTCTTGAAAGAATGAGTGACCATAAATGGACTTTTCTTGCCAA
*
2067 TGGATGGCTTTTTCTACACATTTCCTGAGGTAAACATTTA
131 TGAAT-GCTTTTTCTACACATTTCCTGAGGTAAACATTTA
*
2107 ATTATAATCTGTTTTAACCAAAAAT-GAAAAAAATTTAACTGAAAATCAATTATGAGGTCATAAA
1 ATTATAATCTGTTTTAACCAAAAATAGAAAAAAATTT-ACTGAAAATCAATTATGAGATCATAAA
* *
2171 ATCAGTTAGAA-CGAGTAATAAACCTTTTGAAGGAATGAGTGACCATAAATGGACTTTTCTTGCC
65 ATCAGTTA-AATCGAGTAATAAACCTCTTGAAAGAATGAGTGACCATAAATGGACTTTTCTTGCC
2235 AATGAATGCTTTTT
129 AATGAATGCTTTTT
2249 TGTTCACGTT
Statistics
Matches: 120, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
168 10 0.08
169 101 0.84
170 9 0.08
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (169 bp):
ATTATAATCTGTTTTAACCAAAAATAGAAAAAAATTTACTGAAAATCAATTATGAGATCATAAAA
TCAGTTAAATCGAGTAATAAACCTCTTGAAAGAATGAGTGACCATAAATGGACTTTTCTTGCCAA
TGAATGCTTTTTCTACACATTTCCTGAGGTAAACATTTA
Done.