Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000580.1 Corchorus capsularis cultivar CVL-1 contig00580, 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, 876

Length: 1461
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30


Found at i:941 original size:33 final size:32

Alignment explanation


    Indices: 899--990  Score: 94
    Period size: 33  Copynumber: 2.8  Consensus size: 32

        889 AGCTAAAGGA

                *                            
        899 TCATATGGCCGGTTGTGGCCGGGCATGGCCAAG
          1 TCATGTGGCCGG-TGTGGCCGGGCATGGCCAAG

                               *    *      * 
        932 TCATGTGGCCGGGTGTGGCTGGGCTTGGCCATG
          1 TCATGTGGCC-GGTGTGGCCGGGCATGGCCAAG

              ** *                    
        965 TCGCGAGGCCGGTGATGGCCGGGCAT
          1 TCATGTGGCCGGTG-TGGCCGGGCAT

        991 CTCCATGTCG


Statistics
Matches: 48,  Mismatches: 9, Indels: 4
        0.79            0.15        0.07

Matches are distributed among these distances:
  32    4  0.08
  33   42  0.88
  34    2  0.04

ACGTcount: A:0.11, C:0.24, G:0.43, T:0.22


Consensus pattern (32 bp):   
TCATGTGGCCGGTGTGGCCGGGCATGGCCAAG

Found at i:997 original size:33 final size:33

Alignment explanation


    Indices: 960--1042  Score: 98
    Period size: 33  Copynumber: 2.5  Consensus size: 33

        950 CTGGGCTTGG

                                              
        960 CCATGTCGCGAGGCCGGTGATGGC-CGGGCATCT
          1 CCATGTCGCGAGGCCGGTG-TGGCGCGGGCATCT

                                 *            
        993 CCATGTCGC-ATGGCCGGTGTTGCGCGGGCATCT
          1 CCATGTCGCGA-GGCCGGTGTGGCGCGGGCATCT

               **     *      
       1026 CCAAATCGCGTGGCCGG
          1 CCATGTCGCGAGGCCGG

       1043 AACTCTAAGT


Statistics
Matches: 43,  Mismatches: 4, Indels: 6
        0.81            0.08        0.11

Matches are distributed among these distances:
  32    4  0.09
  33   39  0.91

ACGTcount: A:0.12, C:0.31, G:0.37, T:0.19


Consensus pattern (33 bp):   
CCATGTCGCGAGGCCGGTGTGGCGCGGGCATCT
Done.