Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002652.1 Corchorus olitorius cultivar O-4 contig02654, 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, 690

Length: 1151
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22


Found at i:1003 original size:22 final size:22

Alignment explanation


    Indices: 978--1042  Score: 76
    Period size: 22  Copynumber: 3.0  Consensus size: 22

        968 GCACGAACAA

                *      *       *  
        978 ATAGAATTGTCTCCATGGATAG
          1 ATAGGATTGTCCCCATGGACAG

                       *   * *    
       1000 ATAGGATTGTCGCCACGAACAG
          1 ATAGGATTGTCCCCATGGACAG

                                 
       1022 ATAGGATTGTCCCCATGGACA
          1 ATAGGATTGTCCCCATGGACA

       1043 ACTATAACGA


Statistics
Matches: 35,  Mismatches: 8, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  22   35  1.00

ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25


Consensus pattern (22 bp):   
ATAGGATTGTCCCCATGGACAG

Found at i:1100 original size:31 final size:32

Alignment explanation


    Indices: 1047--1151  Score: 143
    Period size: 31  Copynumber: 3.5  Consensus size: 32

       1037 TGGACAACTA

                                            
       1047 TAACGATAGACCT--AA--AACTATATGC-AT
          1 TAACGATAGACCTAAAATGAACTATATGCAAT

                                         *  
       1074 TAACGATAGACCTAAAATGAACTATATGCGA-
          1 TAACGATAGACCTAAAATGAACTATATGCAAT

                                            
       1105 TAACGATAGACCTAAAATGAACTATATGCAAT
          1 TAACGATAGACCTAAAATGAACTATATGCAAT

               *            
       1137 T-ATGATAGACCTAAA
          1 TAACGATAGACCTAAA


Statistics
Matches: 70,  Mismatches: 2, Indels: 8
        0.88            0.03        0.10

Matches are distributed among these distances:
  27   13  0.19
  29    2  0.03
  31   53  0.76
  32    2  0.03

ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25


Consensus pattern (32 bp):   
TAACGATAGACCTAAAATGAACTATATGCAAT
Done.