Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005564.1 Corchorus olitorius cultivar O-4 contig05588, 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, 603

Length: 1006
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32


Found at i:359 original size:9 final size:9

Alignment explanation


    Indices: 347--413  Score: 53
    Period size: 9  Copynumber: 7.4  Consensus size: 9

        337 GGATGATAGT

                     
        347 GATAGTGAC
          1 GATAGTGAC

                *   *
        356 GATATTGAT
          1 GATAGTGAC

             *       
        365 GCTAGTGAC
          1 GATAGTGAC

             *  *   *
        374 GCTATTGAT
          1 GATAGTGAC

                     
        383 GATAGTGAC
          1 GATAGTGAC

             *  *   *
        392 GCTATTGAT
          1 GATAGTGAC

                     
        401 GATAGTGAC
          1 GATAGTGAC

                
        410 GATA
          1 GATA

        414 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:372 original size:18 final size:18

Alignment explanation


    Indices: 346--414  Score: 111
    Period size: 18  Copynumber: 3.8  Consensus size: 18

        336 TGGATGATAG

                              
        346 TGATAGTGACGATATTGA
          1 TGATAGTGACGATATTGA

              *        *      
        364 TGCTAGTGACGCTATTGA
          1 TGATAGTGACGATATTGA

                       *      
        382 TGATAGTGACGCTATTGA
          1 TGATAGTGACGATATTGA

                           
        400 TGATAGTGACGATAT
          1 TGATAGTGACGATAT

        415 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.