Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007291.1 Corchorus capsularis cultivar CVL-1 contig07312, 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: 28675
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:14017 original size:18 final size:17

Alignment explanation


    Indices: 13994--14027  Score: 59
    Period size: 18  Copynumber: 1.9  Consensus size: 17

      13984 GGATATGCAA

                              
      13994 ATTTCAATATGGATGGAC
          1 ATTTCAATATGG-TGGAC

                            
      14012 ATTTCAATATGGTGGA
          1 ATTTCAATATGGTGGA

      14028 AATACAAATT


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  17    4  0.25
  18   12  0.75

ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35


Consensus pattern (17 bp):   
ATTTCAATATGGTGGAC

Found at i:27517 original size:19 final size:18

Alignment explanation


    Indices: 27478--27521  Score: 54
    Period size: 19  Copynumber: 2.4  Consensus size: 18

      27468 ATTTTCCTAA

                *             
      27478 TTTCCTTTTTCCTTTTCC
          1 TTTCTTTTTTCCTTTTCC

                                
      27496 TTTTCTTTTTTCC-TTTCTC
          1 -TTTCTTTTTTCCTTTTC-C

                   
      27515 TTTCTTT
          1 TTTCTTT

      27522 GGATTGGGCC


Statistics
Matches: 23,  Mismatches: 1, Indels: 3
        0.85            0.04        0.11

Matches are distributed among these distances:
  18   11  0.48
  19   12  0.52

ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73


Consensus pattern (18 bp):   
TTTCTTTTTTCCTTTTCC

Found at i:27633 original size:12 final size:12

Alignment explanation


    Indices: 27612--27643  Score: 55
    Period size: 12  Copynumber: 2.7  Consensus size: 12

      27602 ATGCGCAGGC

                 *      
      27612 CCGCGTGCTGGG
          1 CCGCGCGCTGGG

                        
      27624 CCGCGCGCTGGG
          1 CCGCGCGCTGGG

                    
      27636 CCGCGCGC
          1 CCGCGCGC

      27644 AGGCCGGCCC


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  12   19  1.00

ACGTcount: A:0.00, C:0.44, G:0.47, T:0.09


Consensus pattern (12 bp):   
CCGCGCGCTGGG
Done.