Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006124.1 Corchorus olitorius cultivar O-4 contig06149, 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, 606

Length: 1011
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36


Found at i:37 original size:10 final size:10

Alignment explanation


    Indices: 22--46  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

         12 TTCAATTTAA

                      
         22 TTTAATCGGT
          1 TTTAATCGGT

                      
         32 TTTAATCGGT
          1 TTTAATCGGT

                 
         42 TTTAA
          1 TTTAA

         47 AATAGGAAAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52


Consensus pattern (10 bp):   
TTTAATCGGT

Found at i:178 original size:11 final size:11

Alignment explanation


    Indices: 162--275  Score: 67
    Period size: 11  Copynumber: 10.8  Consensus size: 11

        152 AAAAAATTTG

                       
        162 TTATATATATT
          1 TTATATATATT

                      *
        173 TTATATATATC
          1 TTATATATATT

            *  *      *
        184 ATAAATATA-A
          1 TTATATATATT

                       
        194 TT-TATATATT
          1 TTATATATATT

               *  *    
        204 TTACATGTATT
          1 TTATATATATT

                       
        215 TTATATATA--
          1 TTATATATATT

             *   *    *
        224 TCATAAATA-A
          1 TTATATATATT

               *       
        234 TTAAATATATT
          1 TTATATATATT

                      *
        245 TTATATATATC
          1 TTATATATATT

            *  *       
        256 ATAAATATATT
          1 TTATATATATT

             *       
        267 TGATATATA
          1 TTATATATA

        276 ATAGCATAAT


Statistics
Matches: 74,  Mismatches: 25, Indels: 8
        0.69            0.23        0.07

Matches are distributed among these distances:
   9   12  0.16
  10    9  0.12
  11   53  0.72

ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51


Consensus pattern (11 bp):   
TTATATATATT
Done.