Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014808.1 Corchorus capsularis cultivar CVL-1 contig14829, 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: 6714
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30


Found at i:3062 original size:33 final size:33

Alignment explanation


    Indices: 3025--3091  Score: 100
    Period size: 33  Copynumber: 2.0  Consensus size: 33

       3015 GTTGGGCGCG

                                        *     
       3025 GATGCCCCATGCAATGGCCAG-TTGTGGTCGGTT
          1 GATGCCCCATGCAATGGCC-GCTTGTGGCCGGTT

                        *                    
       3058 GATGCCCCATGCGATGGCCGCTTGTGGCCGGTT
          1 GATGCCCCATGCAATGGCCGCTTGTGGCCGGTT

             
       3091 G
          1 G

       3092 CCCCATGCGA


Statistics
Matches: 31,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
  32    1  0.03
  33   30  0.97

ACGTcount: A:0.12, C:0.27, G:0.36, T:0.25


Consensus pattern (33 bp):   
GATGCCCCATGCAATGGCCGCTTGTGGCCGGTT

Found at i:5938 original size:10 final size:10

Alignment explanation


    Indices: 5923--5948  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       5913 AGTTGCTGCC

                      
       5923 AAATTCCAGA
          1 AAATTCCAGA

                      
       5933 AAATTCCAGA
          1 AAATTCCAGA

                  
       5943 AAATTC
          1 AAATTC

       5949 TAGAGTCCTC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23


Consensus pattern (10 bp):   
AAATTCCAGA

Found at i:6684 original size:10 final size:10

Alignment explanation


    Indices: 6669--6693  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

       6659 GTTCCTGCAC

                      
       6669 AATTCCAGAA
          1 AATTCCAGAA

                      
       6679 AATTCCAGAA
          1 AATTCCAGAA

                 
       6689 AATTC
          1 AATTC

       6694 TAGAGTCCTC


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

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24


Consensus pattern (10 bp):   
AATTCCAGAA
Done.