Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014695.1 Corchorus capsularis cultivar CVL-1 contig14716, 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: 8461
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32


Found at i:1208 original size:15 final size:15

Alignment explanation


    Indices: 1188--1217  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       1178 GTTGCTCCAA

                           
       1188 GCGATGGTGGCCGGT
          1 GCGATGGTGGCCGGT

                           
       1203 GCGATGGTGGCCGGT
          1 GCGATGGTGGCCGGT

       1218 CATGTATGAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.07, C:0.20, G:0.53, T:0.20


Consensus pattern (15 bp):   
GCGATGGTGGCCGGT

Found at i:5979 original size:10 final size:12

Alignment explanation


    Indices: 5952--6007  Score: 84
    Period size: 10  Copynumber: 5.0  Consensus size: 12

       5942 TCCTATGCGA

                        
       5952 TGGCCGGTCATG
          1 TGGCCGGTCATG

                        
       5964 TGGCCGGTC-T-
          1 TGGCCGGTCATG

                        
       5974 TGGCCGGTCATG
          1 TGGCCGGTCATG

                        
       5986 TGGCCGGTC-T-
          1 TGGCCGGTCATG

                        
       5996 TGGCCGGTCATG
          1 TGGCCGGTCATG

       6008 GTCCCATGCG


Statistics
Matches: 40,  Mismatches: 0, Indels: 8
        0.83            0.00        0.17

Matches are distributed among these distances:
  10   18  0.45
  11    4  0.10
  12   18  0.45

ACGTcount: A:0.05, C:0.27, G:0.41, T:0.27


Consensus pattern (12 bp):   
TGGCCGGTCATG

Found at i:5980 original size:22 final size:22

Alignment explanation


    Indices: 5952--6007  Score: 112
    Period size: 22  Copynumber: 2.5  Consensus size: 22

       5942 TCCTATGCGA

                                  
       5952 TGGCCGGTCATGTGGCCGGTCT
          1 TGGCCGGTCATGTGGCCGGTCT

                                  
       5974 TGGCCGGTCATGTGGCCGGTCT
          1 TGGCCGGTCATGTGGCCGGTCT

                        
       5996 TGGCCGGTCATG
          1 TGGCCGGTCATG

       6008 GTCCCATGCG


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   34  1.00

ACGTcount: A:0.05, C:0.27, G:0.41, T:0.27


Consensus pattern (22 bp):   
TGGCCGGTCATGTGGCCGGTCT
Done.