Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003424.1 Corchorus olitorius cultivar O-4 contig03431, 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, 675

Length: 1126
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33


Found at i:993 original size:9 final size:9

Alignment explanation


    Indices: 981--1047  Score: 53
    Period size: 9  Copynumber: 7.4  Consensus size: 9

        971 GGATGATAGT

                     
        981 GATAGTGAC
          1 GATAGTGAC

                *   *
        990 GATATTGAT
          1 GATAGTGAC

             *       
        999 GCTAGTGAC
          1 GATAGTGAC

             *  *   *
       1008 GCTATTGAT
          1 GATAGTGAC

                     
       1017 GATAGTGAC
          1 GATAGTGAC

             *  *   *
       1026 GCTATTGAT
          1 GATAGTGAC

                     
       1035 GATAGTGAC
          1 GATAGTGAC

                
       1044 GATA
          1 GATA

       1048 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:1006 original size:18 final size:18

Alignment explanation


    Indices: 980--1048  Score: 111
    Period size: 18  Copynumber: 3.8  Consensus size: 18

        970 TGGATGATAG

                              
        980 TGATAGTGACGATATTGA
          1 TGATAGTGACGATATTGA

              *        *      
        998 TGCTAGTGACGCTATTGA
          1 TGATAGTGACGATATTGA

                       *      
       1016 TGATAGTGACGCTATTGA
          1 TGATAGTGACGATATTGA

                           
       1034 TGATAGTGACGATAT
          1 TGATAGTGACGATAT

       1049 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.