Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002367.1 Corchorus olitorius cultivar O-4 contig02367, 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, 674

Length: 1124
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37


Found at i:13 original size:2 final size:2

Alignment explanation


    Indices: 7--55  Score: 89
    Period size: 2  Copynumber: 24.0  Consensus size: 2

          1 ACTTAG

                                                                          
          7 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                     
         49 CTA TA TA
          1 -TA TA TA

         56 AGTCTAAACT


Statistics
Matches: 46,  Mismatches: 0, Indels: 2
        0.96            0.00        0.04

Matches are distributed among these distances:
   2   44  0.96
   3    2  0.04

ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49


Consensus pattern (2 bp):   
TA

Found at i:383 original size:30 final size:27

Alignment explanation


    Indices: 333--415  Score: 103
    Period size: 30  Copynumber: 3.0  Consensus size: 27

        323 GTTAATTTGG

                                       
        333 ACTTATTATTATTATAATAATTATTAA
          1 ACTTATTATTATTATAATAATTATTAA

                              *           
        360 ACTTATTATTAGTGGTATTATAATTATTAA
          1 ACTTATTATTA-T--TATAATAATTATTAA

             *          *        *    
        390 AATTATTATTATAATAATAATAATTA
          1 ACTTATTATTATTATAATAATTATTA

        416 TTAGTGGTAT


Statistics
Matches: 48,  Mismatches: 5, Indels: 6
        0.81            0.08        0.10

Matches are distributed among these distances:
  27   22  0.46
  28    1  0.02
  29    1  0.02
  30   24  0.50

ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49


Consensus pattern (27 bp):   
ACTTATTATTATTATAATAATTATTAA

Done.