Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016713.1 Corchorus olitorius cultivar O-4 contig16746, 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: 8104
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32


Found at i:3130 original size:19 final size:18

Alignment explanation


    Indices: 3097--3132  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       3087 TTGAAATTAT

                              
       3097 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       3115 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       3133 TAAGTCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA

Found at i:5950 original size:16 final size:15

Alignment explanation


    Indices: 5912--5953  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       5902 ACGGAGATTG

                   *       
       5912 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

                           
       5927 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       5942 ACTAGAAAACAA
          1 AC-AGAAAACAA

       5954 AGCAAAGTAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA
Done.