Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010592.1 Corchorus olitorius cultivar O-4 contig10624, 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, 729

Length: 1216
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27


Found at i:460 original size:27 final size:27

Alignment explanation


    Indices: 393--465  Score: 94
    Period size: 27  Copynumber: 2.7  Consensus size: 27

        383 AAGTGAACCT

                                  *    
        393 AAAATGACCAAAATGCCCC-CAGTGTA
          1 AAAATGACCAAAATGCCCCTCAATGTA

                                *     *
        419 AAAATGACCAAAATGCCCCTGAATGTG
          1 AAAATGACCAAAATGCCCCTCAATGTA

            *         *         
        446 CAAATGACCATAATGCCCCT
          1 AAAATGACCAAAATGCCCCT

        466 ATGTGACCCT


Statistics
Matches: 41,  Mismatches: 5, Indels: 1
        0.87            0.11        0.02

Matches are distributed among these distances:
  26   19  0.46
  27   22  0.54

ACGTcount: A:0.40, C:0.27, G:0.15, T:0.18


Consensus pattern (27 bp):   
AAAATGACCAAAATGCCCCTCAATGTA

Found at i:954 original size:30 final size:30

Alignment explanation


    Indices: 911--1216  Score: 461
    Period size: 30  Copynumber: 10.2  Consensus size: 30

        901 TAGAGTGATA

                 *  *       *          *  
        911 ATCCTAAATCAGGATTGAAATAAAGCACTG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                                          
        941 ATCCTCAACCAGGATTAAAATAAAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                    *                     
        971 ATCCTCAAACAGGATTAAAATAAAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                    *  *                  
       1001 ATCCTCAAACATGATTAAAATAAAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                                          
       1031 ATCCTCAACCAGGATTAAAATAAAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                 *              * *       
       1061 ATCCTAAACCAGGATTAAAACAGAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                    *                     
       1091 ATCCTCAAACAGGATTAAAATAAAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                       *                  
       1121 ATCCTCAACCAAGATTAAAATAAAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                                          
       1151 ATCCTCAACCAGGATTAAAATAAAGCAATG
          1 ATCCTCAACCAGGATTAAAATAAAGCAATG

                    *  *              *    
       1181 ATCCTCAAACAAGATTAAAAT-AAGATAATG
          1 ATCCTCAACCAGGATTAAAATAAAG-CAATG

                  
       1211 ATCCTC
          1 ATCCTC


Statistics
Matches: 254,  Mismatches: 21, Indels: 2
        0.92            0.08        0.01

Matches are distributed among these distances:
  29    3  0.01
  30  251  0.99

ACGTcount: A:0.48, C:0.19, G:0.13, T:0.21


Consensus pattern (30 bp):   
ATCCTCAACCAGGATTAAAATAAAGCAATG

Done.