Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005922.1 Corchorus olitorius cultivar O-4 contig05947, 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: 1669
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40


Found at i:447 original size:19 final size:21

Alignment explanation


    Indices: 423--480  Score: 59
    Period size: 20  Copynumber: 2.9  Consensus size: 21

        413 TAGAGATCTT

                     *           
        423 AATTATAAGGT-TTTT-TTAA
          1 AATTATAAGCTATTTTATTAA

                                  
        442 AATTATTAAGCTATTTTATTAA
          1 AATTA-TAAGCTATTTTATTAA

            *      *          
        464 TATTATAGGCT-TTTTAT
          1 AATTATAAGCTATTTTAT

        481 ATACTAACCT


Statistics
Matches: 33,  Mismatches: 3, Indels: 5
        0.80            0.07        0.12

Matches are distributed among these distances:
  19    5  0.15
  20   11  0.33
  21    9  0.27
  22    8  0.24

ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53


Consensus pattern (21 bp):   
AATTATAAGCTATTTTATTAA

Found at i:480 original size:20 final size:20

Alignment explanation


    Indices: 423--480  Score: 57
    Period size: 21  Copynumber: 2.9  Consensus size: 20

        413 TAGAGATCTT

                                 
        423 AATTATAAGG-TTTTT-TTAA
          1 AATTAT-AGGCTTTTTATTAA

                    *             
        442 AATTATTAAGCTATTTTATTAA
          1 AATTA-TAGGCT-TTTTATTAA

            *                
        464 TATTATAGGCTTTTTAT
          1 AATTATAGGCTTTTTAT

        481 ATACTAACCT


Statistics
Matches: 32,  Mismatches: 3, Indels: 7
        0.76            0.07        0.17

Matches are distributed among these distances:
  19    7  0.22
  20    8  0.25
  21    9  0.28
  22    8  0.25

ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53


Consensus pattern (20 bp):   
AATTATAGGCTTTTTATTAA
Done.