Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004495.1 Corchorus capsularis cultivar CVL-1 contig04503, 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, 870

Length: 1450
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30


Found at i:154 original size:25 final size:21

Alignment explanation


    Indices: 91--153  Score: 126
    Period size: 21  Copynumber: 3.0  Consensus size: 21

         81 ATGAGAGACT

                                 
         91 CCTTTCTTTTGTTTTCATTCA
          1 CCTTTCTTTTGTTTTCATTCA

                                 
        112 CCTTTCTTTTGTTTTCATTCA
          1 CCTTTCTTTTGTTTTCATTCA

                                 
        133 CCTTTCTTTTGTTTTCATTCA
          1 CCTTTCTTTTGTTTTCATTCA

        154 TAAAGGCGAA


Statistics
Matches: 42,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   42  1.00

ACGTcount: A:0.10, C:0.24, G:0.05, T:0.62


Consensus pattern (21 bp):   
CCTTTCTTTTGTTTTCATTCA

Found at i:1194 original size:20 final size:20

Alignment explanation


    Indices: 1169--1209  Score: 82
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       1159 AAAAAGCCCT

                                
       1169 TTTGCTATCTATTTATTTTA
          1 TTTGCTATCTATTTATTTTA

                                
       1189 TTTGCTATCTATTTATTTTA
          1 TTTGCTATCTATTTATTTTA

             
       1209 T
          1 T

       1210 CCGACCTTTT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   21  1.00

ACGTcount: A:0.20, C:0.10, G:0.05, T:0.66


Consensus pattern (20 bp):   
TTTGCTATCTATTTATTTTA
Done.