Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000487.1 Corchorus olitorius cultivar O-4 contig00487, 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, 616

Length: 1027
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37


Found at i:291 original size:132 final size:131

Alignment explanation


    Indices: 88--352  Score: 449
    Period size: 132  Copynumber: 2.0  Consensus size: 131

         78 GTCATTTAAG

                                       *                 *       *           
         88 AAATATATTTTAAAAATTCTAATATATCTAAGTTTTTTAATTAAATTAGTAAATTGATAAAAATA
          1 AAATATATTTTAAAAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGATAAAAATA

                                                                             
        153 AAATAGTTATAAGGATATTAGATTTAATTAAATAAAAAATAGAGTTTTTAGTTGAGTAAAACTAT
         66 AAATAGTTATAAGGATATTAGATTTAATTAAAT-AAAAATAGAGTTTTTAGTTGAGTAAAACTAT

              
        218 AA
        130 AA

                                           *                        *       *
        220 AAATATATTTTAAAAATTCTAATATATATAATTTTTTTAATTAAAATAGTAAAATGGTAAAAATT
          1 AAATATATTTTAAAAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGATAAAAATA

                                *        *                                   
        285 AAATAGTTATAAGGATATTATATTTAATTTAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATA
         66 AAATAGTTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATA

             
        350 A
        131 A

              
        351 AA
          1 AA

        353 GTCTAAACAA


Statistics
Matches: 125,  Mismatches: 8, Indels: 1
        0.93            0.06        0.01

Matches are distributed among these distances:
 131   35  0.28
 132   90  0.72

ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40


Consensus pattern (131 bp):   
AAATATATTTTAAAAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGATAAAAATA
AAATAGTTATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATA
A
Done.