Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001281.1 Corchorus capsularis cultivar CVL-1 contig01281, 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: 8671
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:218 original size:7 final size:7

Alignment explanation


    Indices: 206--231  Score: 52
    Period size: 7  Copynumber: 3.7  Consensus size: 7

        196 TTTGTCTCAG

                   
        206 TCTCAAT
          1 TCTCAAT

                   
        213 TCTCAAT
          1 TCTCAAT

                   
        220 TCTCAAT
          1 TCTCAAT

                 
        227 TCTCA
          1 TCTCA

        232 TGGAAATGGA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   19  1.00

ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42


Consensus pattern (7 bp):   
TCTCAAT

Found at i:2722 original size:9 final size:9

Alignment explanation


    Indices: 2705--2741  Score: 56
    Period size: 9  Copynumber: 4.1  Consensus size: 9

       2695 TGTCCAACCA

                     
       2705 ATTGCATAT
          1 ATTGCATAT

                *    
       2714 ATTGGATAT
          1 ATTGCATAT

                     
       2723 ATTGCATAT
          1 ATTGCATAT

                *    
       2732 ATTGGATAT
          1 ATTGCATAT

             
       2741 A
          1 A

       2742 GCTGAATGGC


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   9   25  1.00

ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43


Consensus pattern (9 bp):   
ATTGCATAT

Found at i:2726 original size:18 final size:18

Alignment explanation


    Indices: 2705--2741  Score: 74
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       2695 TGTCCAACCA

                              
       2705 ATTGCATATATTGGATAT
          1 ATTGCATATATTGGATAT

                              
       2723 ATTGCATATATTGGATAT
          1 ATTGCATATATTGGATAT

             
       2741 A
          1 A

       2742 GCTGAATGGC


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43


Consensus pattern (18 bp):   
ATTGCATATATTGGATAT
Done.