Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002598.1 Corchorus olitorius cultivar O-4 contig02599, 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: 2921
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33


Found at i:911 original size:37 final size:37

Alignment explanation


    Indices: 865--969  Score: 132
    Period size: 37  Copynumber: 2.9  Consensus size: 37

        855 TTCCTTTTTT

                                                  
        865 TGACCTCTTTCTATTTTAGGCCAAGTTTTTTCTTTTCC
          1 TGACCTCTTTCTATTTTAGGCCAAGTTTTTT-TTTTCC

                *                                 
        903 -GACTTCTTTCTATTTTAGG-CACAG---TTTTTTTCC
          1 TGACCTCTTTCTATTTTAGGCCA-AGTTTTTTTTTTCC

                                               
        936 TGACCTCTTTCTATTTTAGGTCC-AGTTTTTTTTT
          1 TGACCTCTTTCTATTTTAGG-CCAAGTTTTTTTTT

        970 AGCTCCTTTT


Statistics
Matches: 58,  Mismatches: 2, Indels: 15
        0.77            0.03        0.20

Matches are distributed among these distances:
  33    6  0.10
  34   23  0.40
  36    3  0.05
  37   26  0.45

ACGTcount: A:0.13, C:0.21, G:0.11, T:0.54


Consensus pattern (37 bp):   
TGACCTCTTTCTATTTTAGGCCAAGTTTTTTTTTTCC

Found at i:950 original size:34 final size:33

Alignment explanation


    Indices: 865--967  Score: 127
    Period size: 34  Copynumber: 2.9  Consensus size: 33

        855 TTCCTTTTTT

                                                  
        865 TGACCTCTTTCTATTTTAGGCCAAGTTTTTTCTTTTCC
          1 TGACCTCTTTCTATTTTAGGCC-AG---TTT-TTTTCC

                *                             
        903 -GACTTCTTTCTATTTTAGGCACAGTTTTTTTCC
          1 TGACCTCTTTCTATTTTAGGC-CAGTTTTTTTCC

                                            
        936 TGACCTCTTTCTATTTTAGGTCCAGTTTTTTT
          1 TGACCTCTTTCTATTTTAGG-CCAGTTTTTTT

        968 TTAGCTCCTT


Statistics
Matches: 60,  Mismatches: 2, Indels: 10
        0.83            0.03        0.14

Matches are distributed among these distances:
  33    6  0.10
  34   31  0.52
  35    1  0.02
  37   21  0.35
  38    1  0.02

ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53


Consensus pattern (33 bp):   
TGACCTCTTTCTATTTTAGGCCAGTTTTTTTCC
Done.