Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01001485.1 Corchorus capsularis cultivar CVL-1 contig01485, 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: 2136
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Found at i:1133 original size:147 final size:147
Alignment explanation
Indices: 866--1157 Score: 575
Period size: 147 Copynumber: 2.0 Consensus size: 147
856 AAAATATGAT
866 GACAAATTGTTCTTATGAGTTGAAGGGTCAAATTGTCACATTTTAGATGATATGAGGGCCACAAT
1 GACAAATTGTTCTTATGAGTTGAAGGGTCAAATTGTCACATTTTAGATGATATGAGGGCCACAAT
931 CGAGACCAAATCTCATCATATATAGATAAGACATCATATCATATAGTAAAATGGTAAATAGTAAT
66 CGAGACCAAATCTCATCATATATAGATAAGACATCATATCATATAGTAAAATGGTAAATAGTAAT
996 ATAAAATGTTAATTACA
131 ATAAAATGTTAATTACA
*
1013 GACAAATTGTTCTTATGAGTTGAAGGGTCAAATTGTCACATTTTAGATGTTATGAGGGCCACAAT
1 GACAAATTGTTCTTATGAGTTGAAGGGTCAAATTGTCACATTTTAGATGATATGAGGGCCACAAT
1078 CGAGACCAAATCTCATCATATATAGATAAGACATCATATCATATAGTAAAATGGTAAATAGTAAT
66 CGAGACCAAATCTCATCATATATAGATAAGACATCATATCATATAGTAAAATGGTAAATAGTAAT
1143 ATAAAATGTTAATTA
131 ATAAAATGTTAATTA
1158 TAGCTATCAA
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (147 bp):
GACAAATTGTTCTTATGAGTTGAAGGGTCAAATTGTCACATTTTAGATGATATGAGGGCCACAAT
CGAGACCAAATCTCATCATATATAGATAAGACATCATATCATATAGTAAAATGGTAAATAGTAAT
ATAAAATGTTAATTACA
Done.