Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022854.1 Corchorus olitorius cultivar O-4 contig22887, 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: 15148
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:7996 original size:10 final size:10

Alignment explanation


    Indices: 7981--8037  Score: 82
    Period size: 10  Copynumber: 5.9  Consensus size: 10

       7971 CAGTATTCTT

                      
       7981 TATTAAACAA
          1 TATTAAACAA

                     *
       7991 TATTAAACAC
          1 TATTAAACAA

                   *  
       8001 T-TTAAAAAA
          1 TATTAAACAA

                      
       8010 T-TTAAACAA
          1 TATTAAACAA

                      
       8019 TATTAAACAA
          1 TATTAAACAA

                     
       8029 TATTAAACA
          1 TATTAAACA

       8038 CTTTAAAAAT


Statistics
Matches: 42,  Mismatches: 4, Indels: 2
        0.88            0.08        0.04

Matches are distributed among these distances:
   9   15  0.36
  10   27  0.64

ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32


Consensus pattern (10 bp):   
TATTAAACAA

Found at i:8013 original size:9 final size:9

Alignment explanation


    Indices: 7983--8044  Score: 70
    Period size: 10  Copynumber: 6.6  Consensus size: 9

       7973 GTATTCTTTA

                     
       7983 TTAAACAAT
          1 TTAAACAAT

                    * 
       7992 ATTAAACACT
          1 -TTAAACAAT

                 *   
       8002 TTAAAAAAT
          1 TTAAACAAT

                     
       8011 TTAAACAAT
          1 TTAAACAAT

                      
       8020 ATTAAACAAT
          1 -TTAAACAAT

                    * 
       8030 ATTAAACACT
          1 -TTAAACAAT

                 
       8040 TTAAA
          1 TTAAA

       8045 AATACAGAAG


Statistics
Matches: 46,  Mismatches: 5, Indels: 3
        0.85            0.09        0.06

Matches are distributed among these distances:
   9   20  0.43
  10   26  0.57

ACGTcount: A:0.56, C:0.11, G:0.00, T:0.32


Consensus pattern (9 bp):   
TTAAACAAT
Done.