Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005724.1 Corchorus capsularis cultivar CVL-1 contig05742, 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: 2746
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38


Found at i:1573 original size:12 final size:12

Alignment explanation


    Indices: 1556--1588  Score: 52
    Period size: 12  Copynumber: 2.9  Consensus size: 12

       1546 TATAACATAA

                        
       1556 GAATATATATAT
          1 GAATATATATAT

                        
       1568 GAATATATATAT
          1 GAATATATATAT

                       
       1580 --ATATATATA
          1 GAATATATATA

       1589 ATCTTCCCTA


Statistics
Matches: 21,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  10    9  0.43
  12   12  0.57

ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42


Consensus pattern (12 bp):   
GAATATATATAT

Found at i:2092 original size:21 final size:20

Alignment explanation


    Indices: 2050--2093  Score: 52
    Period size: 21  Copynumber: 2.1  Consensus size: 20

       2040 TCTTGTAATC

                             *  
       2050 TAAAATTACTAAAAAAGTTA
          1 TAAAATTACTAAAAAAGCTA

                     *     *     
       2070 TAAAAGTTATTAAAATAGCTA
          1 TAAAA-TTACTAAAAAAGCTA

               
       2091 TAA
          1 TAA

       2094 TTCTTTCCAC


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  20    5  0.25
  21   15  0.75

ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32


Consensus pattern (20 bp):   
TAAAATTACTAAAAAAGCTA
Done.