Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015821.1 Corchorus capsularis cultivar CVL-1 contig15842, 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: 4651
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28


Found at i:1766 original size:12 final size:12

Alignment explanation


    Indices: 1749--1782  Score: 59
    Period size: 12  Copynumber: 2.8  Consensus size: 12

       1739 GCCGGGTGCC

                        
       1749 CCATGCGTTGCT
          1 CCATGCGTTGCT

                   *    
       1761 CCATGCGATGCT
          1 CCATGCGTTGCT

                      
       1773 CCATGCGTTG
          1 CCATGCGTTG

       1783 GCCGATCATG


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  12   20  1.00

ACGTcount: A:0.12, C:0.32, G:0.26, T:0.29


Consensus pattern (12 bp):   
CCATGCGTTGCT

Found at i:1768 original size:42 final size:42

Alignment explanation


    Indices: 1684--1770  Score: 104
    Period size: 42  Copynumber: 2.1  Consensus size: 42

       1674 AATGGGTCGA

                                 * *             *    
       1684 ATGGCCGGTTATGGCCGGATGGCGCATGCATTGGCCCGTGCG
          1 ATGGCCGGTTATGGCCGGATGCCCCATGCATTGGCCCATGCG

                      *       *          *             
       1726 ATGGCCGGTTGTGGCCGGGTGCCCCATGCGTT-GCTCCATGCG
          1 ATGGCCGGTTATGGCCGGATGCCCCATGCATTGGC-CCATGCG

               
       1768 ATG
          1 ATG

       1771 CTCCATGCGT


Statistics
Matches: 38,  Mismatches: 6, Indels: 2
        0.83            0.13        0.04

Matches are distributed among these distances:
  41    2  0.05
  42   36  0.95

ACGTcount: A:0.10, C:0.28, G:0.39, T:0.23


Consensus pattern (42 bp):   
ATGGCCGGTTATGGCCGGATGCCCCATGCATTGGCCCATGCG
Done.