Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018734.1 Corchorus olitorius cultivar O-4 contig18767, 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: 9686
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31


Found at i:4432 original size:19 final size:18

Alignment explanation


    Indices: 4399--4434  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       4389 TGGAAATAAT

                              
       4399 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       4417 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       4435 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:8946 original size:30 final size:30

Alignment explanation


    Indices: 8910--8974  Score: 96
    Period size: 30  Copynumber: 2.2  Consensus size: 30

       8900 CATGAGATAG

                                           
       8910 ATCAAGGAGTTGGC-TGCATTACTAAACATA
          1 ATCAAGGAGTT-GCATGCATTACTAAACATA

                                 *   *    
       8940 ATCAAGGAGTTGCATGCATTATTAACCATA
          1 ATCAAGGAGTTGCATGCATTACTAAACATA

                 
       8970 ATCAA
          1 ATCAA

       8975 TAAGTTTACG


Statistics
Matches: 32,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
  29    2  0.06
  30   30  0.94

ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28


Consensus pattern (30 bp):   
ATCAAGGAGTTGCATGCATTACTAAACATA
Done.