Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402084.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_518.0, 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: 3426
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.24
Warning! 1308 characters in sequence are not A, C, G, or T
Found at i:474 original size:171 final size:171
Alignment explanation
Indices: 155--518 Score: 393
Period size: 171 Copynumber: 2.1 Consensus size: 171
145 NNNNNNNNNN
* * ** * *
155 ATTCCTTCAAAAGCCTTATTAC-CTGCTTTAAATGGTTTTATAAAT-TCGTAATTGATTTTAAGT
1 ATTCCTTCAAAAGCCTTATTACTC-GGTTTAACTAATTTTAT-AATCTCTTAGTTGATTTTAAGT
** * * * *
218 TAAATTTTTTTATACTTTTCTTTAAAATAGACTATAATTGAAAGCTTACCATAAGAAAGGTGAAG
64 TAAATTTTTGAACACTTTTCTTTAAAACAGACTATAATTGAAAGCTTAACATAAGAAACGTGAAG
* *
283 AAAAAGTCATTCAGTGAGAAGAATAA-TCCATTTTTAGTCACCC
129 AAAAAGTCATTAAGTGAGAAGAA-AAGTCCATTTATAGTCACCC
* ** *
326 ATTCTTTTGAAAGCCTTATTACTCGGTTTAACTAATTTTATAATCTCTTAGTTGATTTTAAGTTG
1 ATTCCTTCAAAAGCCTTATTACTCGGTTTAACTAATTTTATAATCTCTTAGTTGATTTTAAGTTA
* *
391 AATTTTTGAACATTTTTCTTTAAAACAGA-TAATAATTGAATG-TCTAAC-TAGAGAAACGTGCA
66 AATTTTTGAACACTTTTCTTTAAAACAGACT-ATAATTGAAAGCT-TAACATA-AGAAACGTG-A
* *
453 A-AAAAAG-CTATTAATTGAGAAGAAAAGTCCATTTATAGTCACTC
127 AGAAAAAGTC-ATTAAGTGAGAAGAAAAGTCCATTTATAGTCACCC
*
497 ATTCCTTCAAAAGTCTTATTAC
1 ATTCCTTCAAAAGCCTTATTAC
519 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
170 10 0.06
171 146 0.92
172 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (171 bp):
ATTCCTTCAAAAGCCTTATTACTCGGTTTAACTAATTTTATAATCTCTTAGTTGATTTTAAGTTA
AATTTTTGAACACTTTTCTTTAAAACAGACTATAATTGAAAGCTTAACATAAGAAACGTGAAGAA
AAAGTCATTAAGTGAGAAGAAAAGTCCATTTATAGTCACCC
Done.