Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011450.1 Corchorus olitorius cultivar O-4 contig11483, 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, 701

Length: 1169
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28


Found at i:839 original size:154 final size:153

Alignment explanation


    Indices: 580--1157  Score: 871
    Period size: 154  Copynumber: 3.8  Consensus size: 153

        570 AAGAATTGAG

                                    *         *         *               *    
        580 GTTTGCCAAATCGAAGACGATTCATAACGTCACTGATGGGCCCCGATAGGCCCAAAATAAAAAGT
          1 GTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGG-CCCAATAGGCCCAAAATAACAAGT

                                                     *                       
        645 GTTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACCAAAATGATTATAGTTAGGCCATA
         65 GTTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACAAAAATGATTATAGTTAGGCCATA

                                    
        710 AACAATGGAAAGAAAGGCATCGAA
        130 AACAATGGAAAGAAAGGCATCGAA

                                                            *   **           
        734 GTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGTGCCCAATAAGCCTGAAATAACAAGT
          1 GTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGG-GCCCAATAGGCCCAAAATAACAAGT

                                                                        *    
        799 GTTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACAAAAATGATTATAGTTAGGGCATA
         65 GTTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACAAAAATGATTATAGTTAGGCCATA

                                    
        864 AACAATGGAAAGAAAGGCATCGAA
        130 AACAATGGAAAGAAAGGCATCGAA

                                                    *            *           
        888 GTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGTCCCCAATAGGCCCGAAATAACAAGT
          1 GTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGG-GCCCAATAGGCCCAAAATAACAAGT

                                                                          *  
        953 GTTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACAAAAATGATTATAGTTAGGCCGTA
         65 GTTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACAAAAATGATTATAGTTAGGCCATA

                           *    *  *
       1018 AAC-----AAAGAAAAGCATTGAG
        130 AACAATGGAAAGAAAGGCATCGAA

                              *            *             *      *            
       1037 GTTTGCCAAATCGAAGACAATTCAAAAC-TGAACTAATGGGCCTCGATAGGCACAAAATAACAAG
          1 GTTTGCCAAATCGAAGACGATTCAAAACGT-CACTAATGGGCC-CAATAGGCCCAAAATAACAAG

                               *             *        *              
       1101 TGTTCCAAATGAGCTAAAAGCTTCACAGTGGACTAATCTCACCAAAATGATTATAGT
         64 TGTTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACAAAAATGATTATAGT

       1158 CTTCAAGGTT


Statistics
Matches: 395,  Mismatches: 26, Indels: 11
        0.91            0.06        0.03

Matches are distributed among these distances:
 148    3  0.01
 149  120  0.30
 154  271  0.69
 155    1  0.00

ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21


Consensus pattern (153 bp):   
GTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCAATAGGCCCAAAATAACAAGTG
TTCCAAATGAGCTAAAAACTTCACAGTGGACAAATCTCACAAAAATGATTATAGTTAGGCCATAA
ACAATGGAAAGAAAGGCATCGAA
Done.