Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005485.1 Corchorus capsularis cultivar CVL-1 contig05503, 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: 15167
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33


Found at i:366 original size:109 final size:108

Alignment explanation


    Indices: 202--445  Score: 393
    Period size: 109  Copynumber: 2.2  Consensus size: 108

        192 TAAATTAAAA

                         *  *                                                
        202 TGGTAAAAATAAAAAAATATAAA-ATATTGAATTTAATTAAATGAAAATAAAGTTTTTAGTAGAA
          1 TGGTAAAAATAAATAATTATAAAGATATTGAATTTAATTAAATGAAAATAAAGTTTTTAGTAGAA

                                                 *     
        266 TAAAATTGTATATTAGAAAAAATTTTAATATATCCAATTTTTT
         66 TAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT

                                                               **            
        309 TGGTAAAAATAAAGTAATTATAAAGATATT-AGATTTAATTAAATGAAAATTGAGTTTTTAGTAG
          1 TGGTAAAAATAAA-TAATTATAAAGATATTGA-ATTTAATTAAATGAAAATAAAGTTTTTAGTAG

                                         *               
        373 AATAAAATTGTATATTAGAAAAAATTTTAGTATATCCAAATTTTT
         64 AATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT

                                        
        418 TGGTAAAAATAAAATAATTATAAAGATA
          1 TGGTAAAAAT-AAATAATTATAAAGATA

        446 AAGATATTAG


Statistics
Matches: 127,  Mismatches: 6, Indels: 6
        0.91            0.04        0.04

Matches are distributed among these distances:
 107   13  0.10
 108    9  0.07
 109  102  0.80
 110    3  0.02

ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38


Consensus pattern (108 bp):   
TGGTAAAAATAAATAATTATAAAGATATTGAATTTAATTAAATGAAAATAAAGTTTTTAGTAGAA
TAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT

Found at i:6774 original size:16 final size:16

Alignment explanation


    Indices: 6753--6784  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       6743 CCAAAACTGT

                            
       6753 TTCTAAAATTTTTGAA
          1 TTCTAAAATTTTTGAA

                            
       6769 TTCTAAAATTTTTGAA
          1 TTCTAAAATTTTTGAA

       6785 AACGGAAATA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50


Consensus pattern (16 bp):   
TTCTAAAATTTTTGAA
Done.