Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009866.1 Corchorus olitorius cultivar O-4 contig09898, 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: 1997
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40


Found at i:486 original size:145 final size:149

Alignment explanation


    Indices: 213--506  Score: 499
    Period size: 145  Copynumber: 2.0  Consensus size: 149

        203 CATAAGAAGG

                 *                                         *                 
        213 ATGGAGAAAGAAAATTAAGGAAATTATTATTGTTTTTAATTTTATCTTTTTCCTCATGTAGAATT
          1 ATGGACAAAGAAAATTAAGGAAATTATTATTGTTTTTAATTTTATCTCTTTCCTCATGTAGAATT

                                                    *                        
        278 ACTATATAGAAACAAAAACAATGATTATTTTGTCAAAACCGTATGTATAATTTTTTCAAACCATC
         66 ACTATATAGAAACAAAAACAATGATTATTTTGTCAAAACCATATGTATAATTTTTTCAAACCATC

                                
        343 AATTATTTTTTTCATGAATT
        131 AATTA-TTTTTTCATGAATT

                                                                             
        363 ATGGACAAAGAAAATTAAGGAAATTATTATTGTTTTTAATTTTAT-TCTTTCCTCATGTAGAATT
          1 ATGGACAAAGAAAATTAAGGAAATTATTATTGTTTTTAATTTTATCTCTTTCCTCATGTAGAATT

                                                             *       *       
        427 ACTATATAG-AA-AAAAA-AA-GATTATTTTGTCAAAACCATATGTATATTTTTTTCGAACCATC
         66 ACTATATAGAAACAAAAACAATGATTATTTTGTCAAAACCATATGTATAATTTTTTCAAACCATC

                               
        488 AATTATTTTTTCATGAATT
        131 AATTATTTTTTCATGAATT

        507 CTTAAACCAC


Statistics
Matches: 139,  Mismatches: 5, Indels: 6
        0.93            0.03        0.04

Matches are distributed among these distances:
 144   14  0.10
 145   45  0.32
 146    2  0.01
 147    5  0.04
 148    2  0.01
 149   27  0.19
 150   44  0.32

ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42


Consensus pattern (149 bp):   
ATGGACAAAGAAAATTAAGGAAATTATTATTGTTTTTAATTTTATCTCTTTCCTCATGTAGAATT
ACTATATAGAAACAAAAACAATGATTATTTTGTCAAAACCATATGTATAATTTTTTCAAACCATC
AATTATTTTTTCATGAATT
Done.