Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000014.1 Corchorus olitorius cultivar O-4 contig00014, 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, 688

Length: 1147
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32


Found at i:567 original size:14 final size:14

Alignment explanation


    Indices: 548--608  Score: 52
    Period size: 14  Copynumber: 4.4  Consensus size: 14

        538 TTTTCAAAAT

                    *     
        548 AAAAAACTTTTTTC
          1 AAAAAACTATTTTC

                  **      
        562 AAAAAAAGATTTTC
          1 AAAAAACTATTTTC

              *     *     
        576 AAGAAACTGTTTTC
          1 AAAAAACTATTTTC

                      *    
        590 AAAAAA-TGACTTTC
          1 AAAAAACT-ATTTTC

                 
        604 AAAAA
          1 AAAAA

        609 TGAGTTTTCC


Statistics
Matches: 36,  Mismatches: 10, Indels: 2
        0.75            0.21        0.04

Matches are distributed among these distances:
  13    1  0.03
  14   35  0.97

ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31


Consensus pattern (14 bp):   
AAAAAACTATTTTC

Found at i:617 original size:28 final size:28

Alignment explanation


    Indices: 551--605  Score: 83
    Period size: 28  Copynumber: 2.0  Consensus size: 28

        541 TCAAAATAAA

                 *              *       
        551 AAACTTTTTTCAAAAAAAGATTTTCAAG
          1 AAACTGTTTTCAAAAAAAGACTTTCAAG

                             *         
        579 AAACTGTTTTCAAAAAATGACTTTCAA
          1 AAACTGTTTTCAAAAAAAGACTTTCAA

        606 AAATGAGTTT


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  28   24  1.00

ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35


Consensus pattern (28 bp):   
AAACTGTTTTCAAAAAAAGACTTTCAAG
Done.