Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014660.1 Corchorus olitorius cultivar O-4 contig14693, 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: 4376
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29


Found at i:4224 original size:64 final size:65

Alignment explanation


    Indices: 4123--4247  Score: 234
    Period size: 64  Copynumber: 1.9  Consensus size: 65

       4113 AAGTAACCCC

                                                                             
       4123 AAAACATATAGATTTATATACATACCACACACACTGAAGAAGACGAGAGAGA-AAGAGAGACGCA
          1 AAAACATATAGATTTATATACATACCACACACACTGAAGAAGACGAGAGAGAGAAGAGAGACGCA

                                                         *               
       4187 AAAACATATAGATTTATATACATACCACACACACTGAAGAAGACGTGAGAGAGAAGAGAGA
          1 AAAACATATAGATTTATATACATACCACACACACTGAAGAAGACGAGAGAGAGAAGAGAGA

       4248 GAGAGAGGAG


Statistics
Matches: 59,  Mismatches: 1, Indels: 1
        0.97            0.02        0.02

Matches are distributed among these distances:
  64   51  0.86
  65    8  0.14

ACGTcount: A:0.50, C:0.16, G:0.19, T:0.15


Consensus pattern (65 bp):   
AAAACATATAGATTTATATACATACCACACACACTGAAGAAGACGAGAGAGAGAAGAGAGACGCA

Found at i:4238 original size:2 final size:2

Alignment explanation


    Indices: 4233--4376  Score: 238
    Period size: 2  Copynumber: 73.0  Consensus size: 2

       4223 AAGAAGACGT

                                                             *     *      
       4233 GA GA GA GA -A GA GA GA GA GA GA G- GA GA GA GA GG GA GG GA GA
          1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA

                           *     *                                        
       4273 GA GA GA GA GA TA GA TA GA GA GA GA GA GA GA GA GA GA GA GA GA
          1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA

                                                                          
       4315 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
          1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA

                                         
       4357 GA GA GA GA GA GA GA GA GA GA
          1 GA GA GA GA GA GA GA GA GA GA


Statistics
Matches: 132,  Mismatches: 8, Indels: 4
        0.92            0.06        0.03

Matches are distributed among these distances:
   1    2  0.02
   2  130  0.98

ACGTcount: A:0.49, C:0.00, G:0.50, T:0.01


Consensus pattern (2 bp):   
GA

Done.