Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01015089.1 Corchorus capsularis cultivar CVL-1 contig15110, 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: 4712
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:4475 original size:99 final size:99
Alignment explanation
Indices: 4250--4524 Score: 426
Period size: 99 Copynumber: 2.7 Consensus size: 99
4240 TGGATGAAAT
* * * *
4250 AATGGTCTACAAAAATTATCCCAATCATGGAA-GAATCTCTGCAAAAATTGTCTCCAATAATGTC
1 AATGGTCTGC-AAAGTTATCCCAATTAT-GAAGGAATCTCTGCAAAAATTGTCTCCAATTATGTC
* * *
4314 AATAATGCAAGGCAAACTCATTGGATGAAGATAAAGCA
64 AATAGTGCAA--AAAACGCATTGGATGAAGATAAAGCA
*
4352 AATGGTCTGCAAAGTTATCTCAATTATGAAGGAATCTCTGCAAAAATTGTCTCCAATTATGTCAA
1 AATGGTCTGCAAAGTTATCCCAATTATGAAGGAATCTCTGCAAAAATTGTCTCCAATTATGTCAA
4417 TAGTGCAAAAAACGCATTGGATGAAGATAAAGCA
66 TAGTGCAAAAAACGCATTGGATGAAGATAAAGCA
*
4451 AATGGTCTGCAAAGTTATCCCAATTATGAAGGAATATCTGCAAAAATTGTCTCCAATTATGTCAA
1 AATGGTCTGCAAAGTTATCCCAATTATGAAGGAATCTCTGCAAAAATTGTCTCCAATTATGTCAA
4516 TAGTGCAAA
66 TAGTGCAAA
4525 GTAGAATTGT
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
99 96 0.59
100 3 0.02
101 54 0.33
102 9 0.06
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (99 bp):
AATGGTCTGCAAAGTTATCCCAATTATGAAGGAATCTCTGCAAAAATTGTCTCCAATTATGTCAA
TAGTGCAAAAAACGCATTGGATGAAGATAAAGCA
Done.