Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401540.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4665.0, 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, 921
Length: 1536
ACGTcount: A:0.19, C:0.07, G:0.06, T:0.19
Warning! 766 characters in sequence are not A, C, G, or T
Found at i:1404 original size:168 final size:168
Alignment explanation
Indices: 1165--1471 Score: 395
Period size: 168 Copynumber: 1.8 Consensus size: 168
1155 NNNNNNNNNN
* * ** *
1165 TTTAAATGGTTTTATAATCTTATAATTGATTTTAAGTTAATTGTTTTTATATTATTGGTTAAAAC
1 TTTAAATGGTTTCATAATCTTATAATTCATTTTAAGTTAAAAGTTTTTAGATTATTGGTTAAAAC
** * ** * *
1230 AGACTATAATTGAATGTCTGTCTTG-GAAAAC-ATGTATAAAAAGCCATTCATTAACAAGAAAAG
66 AGACTATAATCAAATGCCTACCTTGAG-AAACGA-GTAGAAAAAGCCATTCATTAACAAAAAAAG
1293 ACCATTTATAGTGACCAATTTCTACAAAAGCCTTACTAGC
129 ACCATTTATAGTGACCAATTTCTACAAAAGCCTTACTAGC
* * *
1333 TTTAAATTGTTTCATAAT-TTCATAATTCATTTTAAGTTAAAAGTTTTTAGATTTTTTGTTAAAA
1 TTTAAATGGTTTCATAATCTT-ATAATTCATTTTAAGTTAAAAGTTTTTAGATTATTGGTTAAAA
* * * *
1397 TAGACTATAATCAAATGCCTACCTTGAGAAACGAGTAGAAAAAGCCATTCATTGAGAAAAAAAGT
65 CAGACTATAATCAAATGCCTACCTTGAGAAACGAGTAGAAAAAGCCATTCATTAACAAAAAAAGA
1462 CCATTTATAG
130 CCATTTATAG
1472 CCACCCATTC
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
167 2 0.02
168 113 0.97
169 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (168 bp):
TTTAAATGGTTTCATAATCTTATAATTCATTTTAAGTTAAAAGTTTTTAGATTATTGGTTAAAAC
AGACTATAATCAAATGCCTACCTTGAGAAACGAGTAGAAAAAGCCATTCATTAACAAAAAAAGAC
CATTTATAGTGACCAATTTCTACAAAAGCCTTACTAGC
Done.