Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001285.1 Corchorus olitorius cultivar O-4 contig01285, 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, 794

Length: 1324
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40


Found at i:9 original size:2 final size:2

Alignment explanation


    Indices: 3--42  Score: 80
    Period size: 2  Copynumber: 20.0  Consensus size: 2

          1 AT

                                                                       
          3 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

         43 CTAGGTAGAC


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   38  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:688 original size:42 final size:40

Alignment explanation


    Indices: 629--712  Score: 132
    Period size: 42  Copynumber: 2.0  Consensus size: 40

        619 TTTAATTCCT

                               *                    
        629 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
          1 ATGTAATATATATAATAACGAAAATACTTACATTAATTAA

                                  *                   
        669 ATGTAATAATACTATAATAACGGAAATACTTACATTAATTAA
          1 ATGTAAT-ATA-TATAATAACGAAAATACTTACATTAATTAA

              
        711 AT
          1 AT

        713 TCTTAGGTAT


Statistics
Matches: 40,  Mismatches: 2, Indels: 2
        0.91            0.05        0.05

Matches are distributed among these distances:
  40    7  0.17
  41    3  0.08
  42   30  0.75

ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36


Consensus pattern (40 bp):   
ATGTAATATATATAATAACGAAAATACTTACATTAATTAA
Done.