Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010163.1 Corchorus olitorius cultivar O-4 contig10195, 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: 6240
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30


Found at i:3237 original size:23 final size:23

Alignment explanation


    Indices: 3179--3231  Score: 99
    Period size: 23  Copynumber: 2.3  Consensus size: 23

       3169 CTCCAACAAT

                                   
       3179 ATATATATGAATATATATCATTA
          1 ATATATATGAATATATATCATTA

                                   
       3202 ATATATATGAATATATATCATTA
          1 ATATATATGAATATATATCATTA

                    
       3225 ATA-ATAT
          1 ATATATAT

       3232 TTAATAATAT


Statistics
Matches: 30,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  22    4  0.13
  23   26  0.87

ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43


Consensus pattern (23 bp):   
ATATATATGAATATATATCATTA

Found at i:3914 original size:45 final size:46

Alignment explanation


    Indices: 3814--3937  Score: 187
    Period size: 45  Copynumber: 2.7  Consensus size: 46

       3804 TATTGTGCCA

                   *           *           *               
       3814 AACCTTGGTAGGAAACTATTACTCCATAGACAACTCCATTATAAAAT
          1 AACCTTGATAGGAAACTATAACTCCATAG-CCACTCCATTATAAAAT

               *                                          
       3861 AACATTGATAGGAAACTATAACTCCATAGCCA-TCCATTATAAAAT
          1 AACCTTGATAGGAAACTATAACTCCATAGCCACTCCATTATAAAAT

                          *                 
       3906 AACCTTGATAGGAATCTATAACTCCATAGCCA
          1 AACCTTGATAGGAAACTATAACTCCATAGCCA

       3938 ACTAATAATC


Statistics
Matches: 71,  Mismatches: 6, Indels: 2
        0.90            0.08        0.03

Matches are distributed among these distances:
  45   43  0.61
  46    2  0.03
  47   26  0.37

ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27


Consensus pattern (46 bp):   
AACCTTGATAGGAAACTATAACTCCATAGCCACTCCATTATAAAAT
Done.