Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002360.1 Corchorus capsularis cultivar CVL-1 contig02366, 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, 706

Length: 1177
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37


Found at i:519 original size:13 final size:13

Alignment explanation


    Indices: 501--525  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        491 ATTCTTAATT

                         
        501 TTATTTATTATTC
          1 TTATTTATTATTC

                        
        514 TTATTTATTATT
          1 TTATTTATTATT

        526 GTCTGCTATA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72


Consensus pattern (13 bp):   
TTATTTATTATTC

Found at i:725 original size:15 final size:15

Alignment explanation


    Indices: 705--742  Score: 62
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        695 GAACAGATAA

                           
        705 GATAAAATAACATAT
          1 GATAAAATAACATAT

                           
        720 GATAAAATAACATAT
          1 GATAAAATAACATAT

                      
        735 -A-AAAATAA
          1 GATAAAATAA

        743 AATAACATAT


Statistics
Matches: 23,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  13    7  0.30
  14    1  0.04
  15   15  0.65

ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24


Consensus pattern (15 bp):   
GATAAAATAACATAT

Found at i:766 original size:20 final size:18

Alignment explanation


    Indices: 721--759  Score: 78
    Period size: 18  Copynumber: 2.2  Consensus size: 18

        711 ATAACATATG

                              
        721 ATAAAATAACATATAAAA
          1 ATAAAATAACATATAAAA

                              
        739 ATAAAATAACATATAAAA
          1 ATAAAATAACATATAAAA

               
        757 ATA
          1 ATA

        760 GAAAATAGTA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   21  1.00

ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23


Consensus pattern (18 bp):   
ATAAAATAACATATAAAA

Found at i:832 original size:21 final size:20

Alignment explanation


    Indices: 806--850  Score: 72
    Period size: 20  Copynumber: 2.2  Consensus size: 20

        796 CTTTTTTTCA

                                 
        806 TTTTTGTATTTTTTTATAGTC
          1 TTTTTGTA-TTTTTTATAGTC

                             *  
        827 TTTTTGTATTTTTTATATTC
          1 TTTTTGTATTTTTTATAGTC

                
        847 TTTT
          1 TTTT

        851 CTAAACATTT


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  20   15  0.65
  21    8  0.35

ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76


Consensus pattern (20 bp):   
TTTTTGTATTTTTTATAGTC
Done.