Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014806.1 Corchorus capsularis cultivar CVL-1 contig14827, 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: 5191
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33


Found at i:3840 original size:30 final size:31

Alignment explanation


    Indices: 3799--3894  Score: 115
    Period size: 33  Copynumber: 3.1  Consensus size: 31

       3789 AAGGATCCAT

                *                          
       3799 TGGCTGGTTGT-GCATGGATGCCCCATGCGA
          1 TGGCCGGTTGTGGCATGGATGCCCCATGCGA

                              *            * 
       3829 TGGCCGGTTGTGGCCAGTTGATGCCCCATGCAA
          1 TGGCCGGTTGTGG-CA-TGGATGCCCCATGCGA

                           *  *            
       3862 TGGCCGGTTGTGGC-CGGTTGCCCCATGCGA
          1 TGGCCGGTTGTGGCATGGATGCCCCATGCGA

               
       3892 TGG
          1 TGG

       3895 TGCATGCGAT


Statistics
Matches: 56,  Mismatches: 7, Indels: 6
        0.81            0.10        0.09

Matches are distributed among these distances:
  30   25  0.45
  31    1  0.02
  32    3  0.05
  33   27  0.48

ACGTcount: A:0.11, C:0.26, G:0.38, T:0.25


Consensus pattern (31 bp):   
TGGCCGGTTGTGGCATGGATGCCCCATGCGA

Found at i:3854 original size:33 final size:30

Alignment explanation


    Indices: 3814--3894  Score: 117
    Period size: 33  Copynumber: 2.6  Consensus size: 30

       3804 GGTTGTGCAT

                                          
       3814 GGATGCCCCATGCGATGGCCGGTTGTGGCC
          1 GGATGCCCCATGCGATGGCCGGTTGTGGCC

                            *                
       3844 AGTTGATGCCCCATGCAATGGCCGGTTGTGGCC
          1 -G--GATGCCCCATGCGATGGCCGGTTGTGGCC

              *               
       3877 GGTTGCCCCATGCGATGG
          1 GGATGCCCCATGCGATGG

       3895 TGCATGCGAT


Statistics
Matches: 45,  Mismatches: 3, Indels: 5
        0.85            0.06        0.09

Matches are distributed among these distances:
  30   15  0.33
  31    1  0.02
  32    1  0.02
  33   28  0.62

ACGTcount: A:0.12, C:0.28, G:0.37, T:0.22


Consensus pattern (30 bp):   
GGATGCCCCATGCGATGGCCGGTTGTGGCC
Done.