Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020605.1 Corchorus olitorius cultivar O-4 contig20638, 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: 2471
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37


Found at i:504 original size:29 final size:28

Alignment explanation


    Indices: 472--527  Score: 67
    Period size: 29  Copynumber: 2.0  Consensus size: 28

        462 TAATTTTTTA

                 *   *                   
        472 TAAATTTTTCTTGTAAATTATTTTTATTT
          1 TAAATATTTATTGTAAATT-TTTTTATTT

                        *   *          
        501 TAAATATTTATTTTAACTTTTTTTATT
          1 TAAATATTTATTGTAAATTTTTTTATT

        528 ATTATTATTT


Statistics
Matches: 23,  Mismatches: 4, Indels: 1
        0.82            0.14        0.04

Matches are distributed among these distances:
  28    8  0.35
  29   15  0.65

ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66


Consensus pattern (28 bp):   
TAAATATTTATTGTAAATTTTTTTATTT

Found at i:2285 original size:16 final size:16

Alignment explanation


    Indices: 2266--2308  Score: 50
    Period size: 16  Copynumber: 2.7  Consensus size: 16

       2256 TGTCTCCGTC

                            
       2266 TCTGTATGTCTATGTA
          1 TCTGTATGTCTATGTA

                 *   *     *
       2282 TCTGTCTGTTTATGTG
          1 TCTGTATGTCTATGTA

                 *     
       2298 TCTGTGTGTCT
          1 TCTGTATGTCT

       2309 GTGTCTTCCT


Statistics
Matches: 22,  Mismatches: 5, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  16   22  1.00

ACGTcount: A:0.09, C:0.14, G:0.23, T:0.53


Consensus pattern (16 bp):   
TCTGTATGTCTATGTA
Done.