Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01001192.1 Corchorus capsularis cultivar CVL-1 contig01192, 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, 820
Length: 1368
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Found at i:1123 original size:169 final size:169
Alignment explanation
Indices: 844--1178 Score: 643
Period size: 169 Copynumber: 2.0 Consensus size: 169
834 AGGTCACATC
*
844 AAGATTCAAACTTAGCTTTCATGATCAAAGCAACCATGTCTCCTTCTCAAACTGATCATGGCTTC
1 AAGATTCAAACTTAGCTTTCATGATCAAAGCAACCATGTCTCCTTCTCAAACTGATCATGCCTTC
* *
909 TTCTTCTGCATCTCCTTTCTACCTCTCTATGGATACTTTCTTATAGAAAAGTTAAGTTTTTTCAC
66 TTCTTCCGCATCTCCTTTCTACCTCTCTATAGATACTTTCTTATAGAAAAGTTAAGTTTTTTCAC
974 CATTTGAAGTATTCAATTTGCAATCAAAAGTAGCAAAAG
131 CATTTGAAGTATTCAATTTGCAATCAAAAGTAGCAAAAG
1013 AAGATTCAAACTTAGCTTTCATGATCAAAGCAACCATGTCTCCTTCTCAAACTGATCATGCCTTC
1 AAGATTCAAACTTAGCTTTCATGATCAAAGCAACCATGTCTCCTTCTCAAACTGATCATGCCTTC
1078 TTCTTCCGCATCTCCTTTCTACCTCTCTATAGATACTTTCTTATAGAAAAGTTAAGTTTTTTCAC
66 TTCTTCCGCATCTCCTTTCTACCTCTCTATAGATACTTTCTTATAGAAAAGTTAAGTTTTTTCAC
1143 CATTTGAAGTATTCAATTTGCAATCAAAAGTAGCAA
131 CATTTGAAGTATTCAATTTGCAATCAAAAGTAGCAA
1179 GAAAACAGAG
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 163 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (169 bp):
AAGATTCAAACTTAGCTTTCATGATCAAAGCAACCATGTCTCCTTCTCAAACTGATCATGCCTTC
TTCTTCCGCATCTCCTTTCTACCTCTCTATAGATACTTTCTTATAGAAAAGTTAAGTTTTTTCAC
CATTTGAAGTATTCAATTTGCAATCAAAAGTAGCAAAAG
Done.