Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018300.1 Corchorus olitorius cultivar O-4 contig18333, 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, 919

Length: 1532
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32


Found at i:715 original size:16 final size:16

Alignment explanation


    Indices: 694--728  Score: 54
    Period size: 16  Copynumber: 2.2  Consensus size: 16

        684 ACCCAATCCG

                             
        694 CCCAACCC-GAAACTGA
          1 CCCAACCCAGAAA-TGA

                            
        710 CCCAACCCAGAAATGA
          1 CCCAACCCAGAAATGA

               
        726 CCC
          1 CCC

        729 GAAATTTTGG


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  16   14  0.78
  17    4  0.22

ACGTcount: A:0.37, C:0.46, G:0.11, T:0.06


Consensus pattern (16 bp):   
CCCAACCCAGAAATGA

Found at i:759 original size:16 final size:16

Alignment explanation


    Indices: 741--815  Score: 89
    Period size: 16  Copynumber: 4.7  Consensus size: 16

        731 AATTTTGGGT

                           *
        741 ACCCGAACCCGAAATT
          1 ACCCGAACCCGAAATG

                   *      * 
        757 ACCCGAATCC-AAACG
          1 ACCCGAACCCGAAATG

                             
        772 ACCCGAACCCGAAAATG
          1 ACCCGAACCCG-AAATG

                *     *     
        789 ACCCAAACCCAAAATG
          1 ACCCGAACCCGAAATG

                       
        805 ACCCGAACCCG
          1 ACCCGAACCCG

        816 TTCAACCCGA


Statistics
Matches: 48,  Mismatches: 9, Indels: 4
        0.79            0.15        0.07

Matches are distributed among these distances:
  15   12  0.25
  16   23  0.48
  17   13  0.27

ACGTcount: A:0.40, C:0.40, G:0.13, T:0.07


Consensus pattern (16 bp):   
ACCCGAACCCGAAATG
Done.