Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023742.1 Corchorus olitorius cultivar O-4 contig23775, 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: 4671
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32


Found at i:4459 original size:29 final size:28

Alignment explanation


    Indices: 4388--4577  Score: 179
    Period size: 29  Copynumber: 6.6  Consensus size: 28

       4378 GATCACCTAA

                                  *        
       4388 GGGCATTTTGGTCATTTT-CAAAATATCCAG
          1 GGGCATTTTGGTCATTTTGC-ACAT-T-CAG

                    *         *          
       4418 GGGCATTTCGGTCATTTTTCACATTCAGG
          1 GGGCATTTTGGTCATTTTGCACATTCA-G

                                    *    
       4447 GGGCATTTTGGTCATTTCTGCACACTCAG
          1 GGGCATTTTGGTCATTT-TGCACATTCAG

              *    *              *     *
       4476 GGACATTGTGGTCATTTTCGCATATTCAA
          1 GGGCATTTTGGTCATTTT-GCACATTCAG

                                *    *  *
       4505 GGGCATTTTGGTCATTGTT-TACATACAT
          1 GGGCATTTTGGTCATT-TTGCACATTCAG

                                 **     
       4533 GGGCATTTTGGTCA-TTTGCATGTTCAG
          1 GGGCATTTTGGTCATTTTGCACATTCAG

                              
       4560 GGGCATTTTGGTCATTTT
          1 GGGCATTTTGGTCATTTT

       4578 AGGATCACTT


Statistics
Matches: 132,  Mismatches: 21, Indels: 16
        0.78            0.12        0.09

Matches are distributed among these distances:
  26    2  0.02
  27   19  0.14
  28   25  0.19
  29   55  0.42
  30   30  0.23
  31    1  0.01

ACGTcount: A:0.19, C:0.17, G:0.24, T:0.39


Consensus pattern (28 bp):   
GGGCATTTTGGTCATTTTGCACATTCAG
Done.