Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004309.1 Corchorus capsularis cultivar CVL-1 contig04317, 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: 3637
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32


Found at i:2180 original size:31 final size:31

Alignment explanation


    Indices: 2141--2238  Score: 124
    Period size: 31  Copynumber: 3.2  Consensus size: 31

       2131 GCATGCATGC

                                           
       2141 CACGTGTCACTTTTTGGTACACGTGGCGTGA
          1 CACGTGTCACTTTTTGGTACACGTGGCGTGA

              *                    *  *   *
       2172 CATGTGTCACTTTTTGGTACACGCGGTGTGC
          1 CACGTGTCACTTTTTGGTACACGTGGCGTGA

               *                  *    *  *
       2203 CACATGTCACTTTTTGGTACACATGGCATGC
          1 CACGTGTCACTTTTTGGTACACGTGGCGTGA

                 
       2234 CACGT
          1 CACGT

       2239 TGGACACCGT


Statistics
Matches: 56,  Mismatches: 11, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  31   56  1.00

ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33


Consensus pattern (31 bp):   
CACGTGTCACTTTTTGGTACACGTGGCGTGA

Found at i:2389 original size:2 final size:2

Alignment explanation


    Indices: 2382--2414  Score: 66
    Period size: 2  Copynumber: 16.5  Consensus size: 2

       2372 ATCTAACTAT

                                                             
       2382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       2415 TGTTTGAATT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.