Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016702.1 Corchorus olitorius cultivar O-4 contig16735, 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: 6963
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34


Found at i:279 original size:17 final size:17

Alignment explanation


    Indices: 248--281  Score: 50
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        238 CTAATTAGGG

                    *        
        248 AATGGGCTTTAAAAGGA
          1 AATGGGCTCTAAAAGGA

                      *      
        265 AATGGGCTCTGAAAGGA
          1 AATGGGCTCTAAAAGGA

        282 TTAAAGCTTT


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21


Consensus pattern (17 bp):   
AATGGGCTCTAAAAGGA

Found at i:6573 original size:15 final size:16

Alignment explanation


    Indices: 6540--6579  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       6530 TTTGTTTGTT

                            
       6540 TTGTTTTCTAGTATAA
          1 TTGTTTTCTAGTATAA

                        *   
       6556 TTGTTTTCT-GTTTAA
          1 TTGTTTTCTAGTATAA

               *     
       6571 TTGCTTTCT
          1 TTGTTTTCT

       6580 TTCAACCTCT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62


Consensus pattern (16 bp):   
TTGTTTTCTAGTATAA
Done.