Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005069.1 Corchorus capsularis cultivar CVL-1 contig05087, 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: 5774
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34


Found at i:410 original size:4 final size:4

Alignment explanation


    Indices: 401--425  Score: 50
    Period size: 4  Copynumber: 6.2  Consensus size: 4

        391 CCTTTTAATA

                                           
        401 TTAT TTAT TTAT TTAT TTAT TTAT T
          1 TTAT TTAT TTAT TTAT TTAT TTAT T

        426 ATAACAATTA


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

Matches are distributed among these distances:
   4   21  1.00

ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76


Consensus pattern (4 bp):   
TTAT

Found at i:610 original size:27 final size:27

Alignment explanation


    Indices: 569--633  Score: 67
    Period size: 27  Copynumber: 2.4  Consensus size: 27

        559 CGGCACTAGA

                    * *           * *  
        569 GGTAATTGTCGCATGATGTTGCGAGAG
          1 GGTAATTGCCACATGATGTTGCAACAG

                           * *         
        596 GGTAATTGCCACATGGTTTTGCAACAG
          1 GGTAATTGCCACATGATGTTGCAACAG

            *          
        623 TGTAATTGCCA
          1 GGTAATTGCCA

        634 TAAGATATAT


Statistics
Matches: 31,  Mismatches: 7, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  27   31  1.00

ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31


Consensus pattern (27 bp):   
GGTAATTGCCACATGATGTTGCAACAG
Done.