Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001843.1 Corchorus olitorius cultivar O-4 contig01843, 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: 2130
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31


Found at i:650 original size:102 final size:106

Alignment explanation


    Indices: 468--681  Score: 337
    Period size: 102  Copynumber: 2.0  Consensus size: 106

        458 ATATTAATCA

                                                                             
        468 CATGTGCAAAGGATTCTATATAAGTTATTTACTAAACTTAATGAAAACACACATGTCAAATTATA
          1 CATGTGCAAAGGATTCTATATAAGTTA--TACTAAACTTAATGAAAACACACATGTCAAATTATA

               *                                       
        533 TGGTAGTTAATGTAAGTTACTCACAAGTCACAAAATTGTCCAC
         64 TGGAAGTTAATGTAAGTTACTCACAAGTCACAAAATTGTCCAC

                               *            *            *                   
        576 CATGTGCAAAGGATTCTATGTAAGTTA-A-T-TAC-TAATGAAAATACACATGTCAAATTATATG
          1 CATGTGCAAAGGATTCTATATAAGTTATACTAAACTTAATGAAAACACACATGTCAAATTATATG

                                       *             
        637 GAAGTTAATGTAAGTTACTCACAAGTCCCAAAATTGTCCAC
         66 GAAGTTAATGTAAGTTACTCACAAGTCACAAAATTGTCCAC

                
        678 CATG
          1 CATG

        682 ATCTGAGAAC


Statistics
Matches: 101,  Mismatches: 5, Indels: 6
        0.90            0.04        0.05

Matches are distributed among these distances:
 102   71  0.70
 103    2  0.02
 104    1  0.01
 105    1  0.01
 108   26  0.26

ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31


Consensus pattern (106 bp):   
CATGTGCAAAGGATTCTATATAAGTTATACTAAACTTAATGAAAACACACATGTCAAATTATATG
GAAGTTAATGTAAGTTACTCACAAGTCACAAAATTGTCCAC
Done.