Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008685.1 Corchorus olitorius cultivar O-4 contig08712, 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: 2292
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36


Found at i:773 original size:19 final size:19

Alignment explanation


    Indices: 727--773  Score: 60
    Period size: 19  Copynumber: 2.4  Consensus size: 19

        717 AGGTTATTAT

                                
        727 TATTATTATAATTATAATAA
          1 TATTA-TATAATTATAATAA

               *                
        747 TATAATATAA-TATAATATA
          1 TATTATATAATTATAATA-A

                    
        766 TATTATAT
          1 TATTATAT

        774 CTTTTTTCTT


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  18    7  0.29
  19   13  0.54
  20    4  0.17

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (19 bp):   
TATTATATAATTATAATAA

Found at i:1987 original size:42 final size:44

Alignment explanation


    Indices: 1940--2029  Score: 114
    Period size: 45  Copynumber: 2.1  Consensus size: 44

       1930 CATTATCAAA

                               **                        
       1940 ATTCTACT-C-CATCACTAGGTAATTCATCAAAATAAA-TCTAAT
          1 ATTCTACTCCTCATCACTAAATAATTCATCAAAATAAAGT-TAAT

                            *                            
       1982 ATTCTACTCCTTCATCTCTAAATAATTCATCAAAATAAAGTTAAT
          1 ATTCTACTCC-TCATCACTAAATAATTCATCAAAATAAAGTTAAT

               
       2027 ATT
          1 ATT

       2030 AATTGTTGCT


Statistics
Matches: 41,  Mismatches: 3, Indels: 5
        0.84            0.06        0.10

Matches are distributed among these distances:
  42    8  0.20
  43    1  0.02
  45   31  0.76
  46    1  0.02

ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37


Consensus pattern (44 bp):   
ATTCTACTCCTCATCACTAAATAATTCATCAAAATAAAGTTAAT
Done.