Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015359.1 Corchorus olitorius cultivar O-4 contig15392, 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: 10424
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30


Found at i:878 original size:15 final size:15

Alignment explanation


    Indices: 848--889  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        838 TTACTCTACT

                            
        848 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
        864 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

               *       
        879 TTGCTTTCTGT
          1 TTGTTTTCTGT

        890 CAATCTCTGT


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


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:4035 original size:22 final size:22

Alignment explanation


    Indices: 4009--4061  Score: 56
    Period size: 22  Copynumber: 2.4  Consensus size: 22

       3999 GATTAAAACT

                                    
       4009 AACAATTAA-AATTAACT-AAGAA
          1 AACAATTAAGAA--AACTAAAGAA

                  *       *       
       4031 AACAATCAAGAAAATTAAAGAA
          1 AACAATTAAGAAAACTAAAGAA

                     
       4053 AACAATTAA
          1 AACAATTAA

       4062 TAAGAAAGCA


Statistics
Matches: 26,  Mismatches: 3, Indels: 4
        0.79            0.09        0.12

Matches are distributed among these distances:
  21    3  0.12
  22   21  0.81
  23    2  0.08

ACGTcount: A:0.66, C:0.09, G:0.06, T:0.19


Consensus pattern (22 bp):   
AACAATTAAGAAAACTAAAGAA
Done.