Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403027.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_695.0, 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: 9352
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.22
Warning! 3810 characters in sequence are not A, C, G, or T
Found at i:6553 original size:170 final size:170
Alignment explanation
Indices: 6311--6690 Score: 416
Period size: 170 Copynumber: 2.2 Consensus size: 170
6301 CGAAAGTAGG
* * * * *
6311 CATTCAATTATAGTCTGTTCTAACCATAAATGTAAAAAAATTTAACTTAAAATCAATTTTGGGAT
1 CATTCAATTATAGTCTGTTCTAACCATAAATATAAAAAAATTCAACTCAAAATCAATTATGAGAT
* *
6376 TATAAAACAATTTAAAGCGAGTT-ATAAGACTTTTAAAGGAATGGATGACTATAAAT-AGACTTT
66 TATAAAACAATTTAAAACGA-TTAATAAGACTTTTAAAGGAATGGATGACCATAAATGA-ACTTT
6439 TCTCC-CTAATGAAT-GCCTTTTTTTCATGTTTATCATAATAAA
129 TCTCCTC-AATGAATAG-CTTTTTTTCATGTTTATCATAATAAA
* * * * *
6481 CATTCAATTATTGTCTGTTTTAACCA-AACATATAAAAATATTCAACTCAACATCAATTATGAGT
1 CATTCAATTATAGTCTGTTCTAACCATAA-ATATAAAAAAATTCAACTCAAAATCAATTATGAGA
* * ** *
6545 TTATAAAACCATTTAAAACGATTAATAAGGCTTTTCTAGGAATGGGTGACCATAAATGAACTTTT
65 TTATAAAACAATTTAAAACGATTAATAAGACTTTTAAAGGAATGGATGACCATAAATGAACTTTT
* * * ** *
6610 CTTCTCAATGAATAGCTTTTTTTACACGTTTCT-A-AAGGCAG
130 CTCCTCAATGAATAGCTTTTTTT-CATGTTTATCATAA-TAAA
*
6651 CATTCAATTATAGTCTGTTCTAACCA-AAATTTCAAAAAAA
1 CATTCAATTATAGTCTGTTCTAACCATAAATAT-AAAAAAA
6691 CTTAANNNNN
Statistics
Matches: 175, Mismatches: 27, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
169 9 0.05
170 156 0.89
171 10 0.06
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (170 bp):
CATTCAATTATAGTCTGTTCTAACCATAAATATAAAAAAATTCAACTCAAAATCAATTATGAGAT
TATAAAACAATTTAAAACGATTAATAAGACTTTTAAAGGAATGGATGACCATAAATGAACTTTTC
TCCTCAATGAATAGCTTTTTTTCATGTTTATCATAATAAA
Done.