Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002691.1 Corchorus olitorius cultivar O-4 contig02693, 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, 927

Length: 1546
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36


Found at i:1379 original size:228 final size:228

Alignment explanation


    Indices: 982--1543  Score: 849
    Period size: 228  Copynumber: 2.5  Consensus size: 228

        972 GGTTTAACAG

                                                              *              
        982 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATAACCCTTGAGGTGGAAAGTTCTGACAC
          1 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATAACCCTTGAGGTAGAAAGTTCTGACAC

               *        *                                                    
       1047 CATCGACAATGTGAAGGCTAAGATCCAGGATAAAGAAGGAATTCCACCAGATCAGCAAAGGTTGA
         66 CATTGACAATGTAAAGGCTAAGATCCAGGATAAAGAAGGAATTCCACCAGATCAGCAAAGGTTGA

                            *                                               *
       1112 TCTTTGCTGGAAAACAGCTTGAAGATGGTCGGACTCTTGCTGATTATAACATCCAGAAGGAGTCT
        131 TCTTTGCTGGAAAACAACTTGAAGATGGTCGGACTCTTGCTGATTATAACATCCAGAAGGAGTCC

                                             
       1177 ACCCTCCACCTAGTGCTTCGTCTCCGAGGTGGA
        196 ACCCTCCACCTAGTGCTTCGTCTCCGAGGTGGA

                                   *              *                    *     
       1210 ATGCAAATCTTTGTGAAAACCCTGACTGGCAAGACCATCACCCTTGAGGTAGAAAGTTCCGACAC
          1 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATAACCCTTGAGGTAGAAAGTTCTGACAC

                                                   *                         
       1275 CATTGACAATGTAAAGGCTAAGATCCAGGATAAAGAAGGTATTCCACCAGATCAGCAAAGGTTGA
         66 CATTGACAATGTAAAGGCTAAGATCCAGGATAAAGAAGGAATTCCACCAGATCAGCAAAGGTTGA

                                                             *               
       1340 TCTTTGCTGGAAAACAACTTGAAGATGGTCGGACTCTTGCTGATTATAATATCCAGAAGGAGTCC
        131 TCTTTGCTGGAAAACAACTTGAAGATGGTCGGACTCTTGCTGATTATAACATCCAGAAGGAGTCC

                       *           *  *     *
       1405 ACCCTCCACCTGGTGCTTCGTCTTCGTGGTGGT
        196 ACCCTCCACCTAGTGCTTCGTCTCCGAGGTGGA

                 *        *  *  *     *           *            *  *  *       
       1438 ATGCAGATCTTTGTCAAGACTCTTACCGG-AAGACCATTA-CCTTAGAGGTTGAGAGCTCTGACA
          1 ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATAACCCTT-GAGGTAGAAAGTTCTGACA

             *     *     *              *     *        
       1501 CTATTGATAATGTCAAGGCTAAGATCCAAGATAAGGAAGGAAT
         65 CCATTGACAATGTAAAGGCTAAGATCCAGGATAAAGAAGGAAT

       1544 CCC


Statistics
Matches: 302,  Mismatches: 31, Indels: 3
        0.90            0.09        0.01

Matches are distributed among these distances:
 226    4  0.01
 227   61  0.20
 228  237  0.78

ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25


Consensus pattern (228 bp):   
ATGCAAATCTTTGTGAAAACCCTTACTGGCAAGACCATAACCCTTGAGGTAGAAAGTTCTGACAC
CATTGACAATGTAAAGGCTAAGATCCAGGATAAAGAAGGAATTCCACCAGATCAGCAAAGGTTGA
TCTTTGCTGGAAAACAACTTGAAGATGGTCGGACTCTTGCTGATTATAACATCCAGAAGGAGTCC
ACCCTCCACCTAGTGCTTCGTCTCCGAGGTGGA
Done.