Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019636.1 Corchorus olitorius cultivar O-4 contig19669, 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: 19203
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34


Found at i:8738 original size:40 final size:40

Alignment explanation


    Indices: 8680--8759  Score: 115
    Period size: 40  Copynumber: 2.0  Consensus size: 40

       8670 GAGAGGTTAC

                  *            *    *       *       
       8680 AATTCTGGATAATCAAGGGGGATATGATTTATTATAACAT
          1 AATTCTAGATAATCAAGGGCGATAGGATTTATCATAACAT

                         *                          
       8720 AATTCTAGATAATTAAGGGCGATAGGATTTATCATAACAT
          1 AATTCTAGATAATCAAGGGCGATAGGATTTATCATAACAT

       8760 TTATGTGAAA


Statistics
Matches: 35,  Mismatches: 5, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  40   35  1.00

ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34


Consensus pattern (40 bp):   
AATTCTAGATAATCAAGGGCGATAGGATTTATCATAACAT

Found at i:18807 original size:11 final size:11

Alignment explanation


    Indices: 18791--18821  Score: 53
    Period size: 11  Copynumber: 2.8  Consensus size: 11

      18781 TCTATAGAAG

                       
      18791 AACTTGTGGCA
          1 AACTTGTGGCA

                       
      18802 AACTTGTGGCA
          1 AACTTGTGGCA

               *     
      18813 AACGTGTGG
          1 AACTTGTGG

      18822 ATTTGAAAAC


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  11   19  1.00

ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26


Consensus pattern (11 bp):   
AACTTGTGGCA
Done.