Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024350.1 Corchorus olitorius cultivar O-4 contig24383, 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: 6001
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33


Found at i:628 original size:34 final size:34

Alignment explanation


    Indices: 566--645  Score: 117
    Period size: 34  Copynumber: 2.3  Consensus size: 34

        556 CTCACTTATT

                                               
        566 CTTTTTCTTCTTTCTTCTTCGTTATGGGCTAGGCC
          1 CTTTTTCTT-TTTCTTCTTCGTTATGGGCTAGGCC

                            *      *           
        601 CTTTTTCTTTTTCTTATTTC-TTCTGGGCTAGGCC
          1 CTTTTTCTTTTTCTT-CTTCGTTATGGGCTAGGCC

                       
        635 CTTTTTCTTTT
          1 CTTTTTCTTTT

        646 GTTTTTTTTT


Statistics
Matches: 42,  Mismatches: 2, Indels: 3
        0.89            0.04        0.06

Matches are distributed among these distances:
  34   30  0.71
  35   12  0.29

ACGTcount: A:0.05, C:0.24, G:0.14, T:0.57


Consensus pattern (34 bp):   
CTTTTTCTTTTTCTTCTTCGTTATGGGCTAGGCC

Found at i:3759 original size:19 final size:19

Alignment explanation


    Indices: 3731--3767  Score: 56
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       3721 TTGGAGGTTT

                        *      
       3731 TTATTAATTGTTTTCTTGA
          1 TTATTAATTGTTATCTTGA

                 *            
       3750 TTATTCATTGTTATCTTG
          1 TTATTAATTGTTATCTTG

       3768 TTAATTGTTT


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  19   16  1.00

ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62


Consensus pattern (19 bp):   
TTATTAATTGTTATCTTGA
Done.