Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002468.1 Corchorus olitorius cultivar O-4 contig02468, 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, 613

Length: 1022
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32


Found at i:396 original size:9 final size:9

Alignment explanation


    Indices: 384--450  Score: 53
    Period size: 9  Copynumber: 7.4  Consensus size: 9

        374 GGATGATAGT

                     
        384 GATAGTGAC
          1 GATAGTGAC

                *   *
        393 GATATTGAT
          1 GATAGTGAC

             *       
        402 GCTAGTGAC
          1 GATAGTGAC

             *  *   *
        411 GCTATTGAT
          1 GATAGTGAC

                     
        420 GATAGTGAC
          1 GATAGTGAC

             *  *   *
        429 GCTATTGAT
          1 GATAGTGAC

                     
        438 GATAGTGAC
          1 GATAGTGAC

                
        447 GATA
          1 GATA

        451 TCGATCGTGA


Statistics
Matches: 42,  Mismatches: 16, Indels: 0
        0.72            0.28        0.00

Matches are distributed among these distances:
   9   42  1.00

ACGTcount: A:0.30, C:0.10, G:0.28, T:0.31


Consensus pattern (9 bp):   
GATAGTGAC

Found at i:409 original size:18 final size:18

Alignment explanation


    Indices: 383--451  Score: 111
    Period size: 18  Copynumber: 3.8  Consensus size: 18

        373 TGGATGATAG

                              
        383 TGATAGTGACGATATTGA
          1 TGATAGTGACGATATTGA

              *        *      
        401 TGCTAGTGACGCTATTGA
          1 TGATAGTGACGATATTGA

                       *      
        419 TGATAGTGACGCTATTGA
          1 TGATAGTGACGATATTGA

                           
        437 TGATAGTGACGATAT
          1 TGATAGTGACGATAT

        452 CGATCGTGAC


Statistics
Matches: 47,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  18   47  1.00

ACGTcount: A:0.29, C:0.10, G:0.28, T:0.33


Consensus pattern (18 bp):   
TGATAGTGACGATATTGA
Done.