Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015790.1 Corchorus capsularis cultivar CVL-1 contig15811, 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: 3467
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30


Found at i:1732 original size:33 final size:33

Alignment explanation


    Indices: 1690--1801  Score: 129
    Period size: 33  Copynumber: 3.4  Consensus size: 33

       1680 AGACAAAGGA

                                              
       1690 TCGCGTGGCCGGTTGTGGCCGGGCATGGCCGA-G
          1 TCGCGTGGCCGGTTGTGGCCGGGCATGGCC-ATG

               **     *     *     *    *     
       1723 TCGTTTGGCCCGTTGTAGCCGGACATGTCCATG
          1 TCGCGTGGCCGGTTGTGGCCGGGCATGGCCATG

                                        *     
       1756 TCGCGTGGCCGG-TGATGGCCGGGCATGTCCATG
          1 TCGCGTGGCCGGTTG-TGGCCGGGCATGGCCATG

                         
       1789 TCGCGTGGCCGGT
          1 TCGCGTGGCCGGT

       1802 CGCGTGGCCG


Statistics
Matches: 65,  Mismatches: 11, Indels: 5
        0.80            0.14        0.06

Matches are distributed among these distances:
  32    3  0.05
  33   62  0.95

ACGTcount: A:0.08, C:0.28, G:0.41, T:0.23


Consensus pattern (33 bp):   
TCGCGTGGCCGGTTGTGGCCGGGCATGGCCATG

Found at i:1805 original size:12 final size:12

Alignment explanation


    Indices: 1788--1813  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

       1778 GCATGTCCAT

                        
       1788 GTCGCGTGGCCG
          1 GTCGCGTGGCCG

                        
       1800 GTCGCGTGGCCG
          1 GTCGCGTGGCCG

              
       1812 GT
          1 GT

       1814 GTTGCGCGGC


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.00, C:0.31, G:0.50, T:0.19


Consensus pattern (12 bp):   
GTCGCGTGGCCG
Done.