Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005134.1 Corchorus capsularis cultivar CVL-1 contig05152, 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: 6253
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29


Found at i:3993 original size:3 final size:3

Alignment explanation


    Indices: 3985--4023  Score: 69
    Period size: 3  Copynumber: 13.0  Consensus size: 3

       3975 ATAAACCCTA

                                             *                 
       3985 ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT
          1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT

       4024 CTTCTTTTTA


Statistics
Matches: 34,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   3   34  1.00

ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64


Consensus pattern (3 bp):   
ATT

Found at i:5257 original size:19 final size:21

Alignment explanation


    Indices: 5211--5262  Score: 72
    Period size: 19  Copynumber: 2.6  Consensus size: 21

       5201 ATTGGATTTT

                            *    
       5211 TCATTACACCAAATAATGATA
          1 TCATTACACCAAATAAAGATA

            *                    
       5232 CCATTACACCAAA-AAAGA-A
          1 TCATTACACCAAATAAAGATA

                        
       5251 TCATTACACCAA
          1 TCATTACACCAA

       5263 GTAGTGACAA


Statistics
Matches: 28,  Mismatches: 3, Indels: 2
        0.85            0.09        0.06

Matches are distributed among these distances:
  19   12  0.43
  20    4  0.14
  21   12  0.43

ACGTcount: A:0.50, C:0.25, G:0.04, T:0.21


Consensus pattern (21 bp):   
TCATTACACCAAATAAAGATA
Done.