Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015691.1 Corchorus capsularis cultivar CVL-1 contig15712, 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: 13364
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31


Found at i:64 original size:18 final size:18

Alignment explanation


    Indices: 41--85  Score: 56
    Period size: 18  Copynumber: 2.5  Consensus size: 18

         31 ATATATATAT

                             * 
         41 ATATATATAAT-GATAATA
          1 ATATATATAATAG-TAACA

                    *         
         59 ATATATATGATAGTAACA
          1 ATATATATAATAGTAACA

                     
         77 ATATATATA
          1 ATATATATA

         86 TAATAATGAT


Statistics
Matches: 23,  Mismatches: 3, Indels: 2
        0.82            0.11        0.07

Matches are distributed among these distances:
  18   22  0.96
  19    1  0.04

ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38


Consensus pattern (18 bp):   
ATATATATAATAGTAACA

Found at i:12982 original size:31 final size:31

Alignment explanation


    Indices: 12939--13003  Score: 112
    Period size: 31  Copynumber: 2.1  Consensus size: 31

      12929 AACTGAACTA

                   *            *          
      12939 ACTCAAATATCCAAGATCTAGAGATCTGGAG
          1 ACTCAAACATCCAAGATCTAAAGATCTGGAG

                                           
      12970 ACTCAAACATCCAAGATCTAAAGATCTGGAG
          1 ACTCAAACATCCAAGATCTAAAGATCTGGAG

               
      13001 ACT
          1 ACT

      13004 AATAACCCAA


Statistics
Matches: 32,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  31   32  1.00

ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22


Consensus pattern (31 bp):   
ACTCAAACATCCAAGATCTAAAGATCTGGAG
Done.