Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401887.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_499.0, 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: 6506
ACGTcount: A:0.16, C:0.06, G:0.05, T:0.16
Warning! 3701 characters in sequence are not A, C, G, or T
Found at i:1100 original size:185 final size:185
Alignment explanation
Indices: 788--1138 Score: 517
Period size: 185 Copynumber: 1.9 Consensus size: 185
778 NNNNNNGCCT
* *
788 TATTACTCGGTTTAAATGATTTCATAATCTCATAATTGATTTTAAGTTGATATTTTTTACATTTT
1 TATTACTCGGTTCAAATGATTTCACAATCTCATAATTGATTTTAAGTTGATATTTTTTACATTTT
* * * *
853 TCTTTAAAACAGACAATAATTGAATGTCTAGCTCAAGAAACATGCAGAAGAACCCATTGATTGAG
66 TCTTTAAAAAAGAAAATAATTGAATGTCTAACTCAAGAAACATGCAGAAAAACCCATTGATTGAG
918 AAGAAAAGTCCATTTATAGTCACCCA-TTCTTTCAAACCCATTCTTTCGAAAGCCA
131 AAGAAAAGTCCATTTATAGTCACCCATTTC-TTCAAACCCATTCTTTCGAAAGCCA
* * **
973 TATTACTCGGTTCAAATGATTTTACAATTTCATAATTGATTTTAAGTTGA-ATTTTTTTTTATTT
1 TATTACTCGGTTCAAATGATTTCACAATCTCATAATTGATTTTAAGTTGATA-TTTTTTACATTT
* * ** * *
1037 TTCTTTAAAAAAGAAAATAATTGAATGTCTAACTCGAGATATGTGTAGAAAAAGCCATTGATTGA
65 TTCTTTAAAAAAGAAAATAATTGAATGTCTAACTCAAGAAACATGCAGAAAAACCCATTGATTGA
*
1102 GAAGAAAAGTCCATTTATAGTCACTCATTTCTTCAAA
130 GAAGAAAAGTCCATTTATAGTCACCCATTTCTTCAAA
1139 AGCCTTATTA
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
184 1 0.01
185 143 0.97
186 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (185 bp):
TATTACTCGGTTCAAATGATTTCACAATCTCATAATTGATTTTAAGTTGATATTTTTTACATTTT
TCTTTAAAAAAGAAAATAATTGAATGTCTAACTCAAGAAACATGCAGAAAAACCCATTGATTGAG
AAGAAAAGTCCATTTATAGTCACCCATTTCTTCAAACCCATTCTTTCGAAAGCCA
Done.