Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011707.1 Corchorus olitorius cultivar O-4 contig11740, 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, 762

Length: 1271
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22


Found at i:667 original size:154 final size:154

Alignment explanation


    Indices: 1--1260  Score: 1924
    Period size: 154  Copynumber: 8.2  Consensus size: 154

                                                                             
          1 TGAGCT-AAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG

              *             *                                                
         65 AACGAAAAGCATTGAGCGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTCGATAT
         66 AAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTCGATAT

                                   *
        130 GCCCAAAATAACAAGTGTTCCAAG
        131 GCCCAAAATAACAAGTGTTCCAAA

                                  *       *       *                      *   
        154 TGAGCTAAAAACTTCACAGTGGTCTAATCTTACCAAAACGATTATAGTTAGGCCATAAACATTGG
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG

                                 *           *                          *    
        219 AAAGAAAAGCATTGAGGGTTGGCAAATCGAAGATGATTCAAAACGG-ACTAATGGTCCTCAATAT
         66 AAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTCGATAT

                                    
        283 GCCCAAAATAACAAGTGTTCCAAA
        131 GCCCAAAATAACAAGTGTTCCAAA

                                                                             
        307 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATTGACTTATAGTTAGGCCATAAACAAT
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAA-TGA-TTATAGTTAGGCCATAAACAAT

                               *                                         *   
        372 GGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAAT-GTGCCCCG-
         64 GGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGT-CCTCGA

              *                        
        435 TAGGCCCAAAATAACAAGTGTTCCAAA
        128 TATGCCCAAAATAACAAGTGTTCCAAA

                                                          *                  
        462 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAATTAGGCCATAAACAATGG
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG

                                      *               *                      
        527 AAAGAAAAGCATTGAGGGTTGCCAAAACGAAGACGATTCAAATCGGAACTAATGGTCCTCGATAT
         66 AAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTCGATAT

                                    
        592 GCCCAAAATAACAAGTGTTCCAAA
        131 GCCCAAAATAACAAGTGTTCCAAA

                            *             *                              *   
        616 TGAGCTAAAAACTTCAAAGTGGACTAATCTTACCAAAATGATTATAGTTAGGCCATAAACATTGG
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG

            *                                                          *     
        681 GAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTTGATAT
         66 AAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTCGATAT

                                   *
        746 GCCCAAAATAACAAGTGTTCCAAG
        131 GCCCAAAATAACAAGTGTTCCAAA

                            *             *                                  
        770 TGAGCTAAAAACTTCAAAGTGGACTAATCTTACCAAAATGATTATAGTTAGGCCATAAACAATGG
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG

              *                              *           **        *  *     *
        835 AACGAAAAGCATTGAGGGTTGCCAAATCGAAGATGATTCAAAACGTCACTAATGGGCCCCGATAG
         66 AAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTCGATAT

                       *         * *
        900 GCCCAAAATAAAAAGTGTTCCTAG
        131 GCCCAAAATAACAAGTGTTCCAAA

               * *     *                  *                                  
        924 TGAACCAAAAAATTCACAGTGGACTAATCTGACCAAAATGATTATAGTTA-GCCATAAACAATGG
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG

              *          *                      *           *                
        988 AACGAGAAAGCATAGAGGGTTTGCCCAAATCGAAGATGATTCAAAACGAAACTAATGGTCCTACG
         66 AAAGA-AAAGCATTGAGGG-TTG-CCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCT-CG

                                        
       1053 ATATGCCCAAAAT-ACAAGTGTTCCAAA
        127 ATATGCCCAAAATAACAAGTGTTCCAAA

                                                                    *      * 
       1080 TGAGCTAAAAACTTCACAGTGGACTAATCTCAACC-AAATGATTATAGTTAGGCCACAAACAACG
          1 TGAGCTAAAAACTTCACAGTGGACTAATCTC-ACCAAAATGATTATAGTTAGGCCATAAACAATG

                              *             *  *                    *        
       1144 GAAAGAAAAGCATTGAGGTTTGCCAAATCGAACACAATTCAAAACGGAACTAATGGGCC-CTGAT
         65 GAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTC-GAT

             *                       *
       1208 AGGCCCAAAATAACAAGTGTTCCAAG
        129 ATGCCCAAAATAACAAGTGTTCCAAA

                                  *    
       1234 TGAGCTAAAAACTTCACAGTGGCCTAA
          1 TGAGCTAAAAACTTCACAGTGGACTAA

       1261 CTATAATCAT


Statistics
Matches: 1014,  Mismatches: 78, Indels: 29
        0.90            0.07        0.03

Matches are distributed among these distances:
 152    1  0.00
 153  191  0.19
 154  544  0.54
 155  138  0.14
 156  107  0.11
 157   33  0.03

ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22


Consensus pattern (154 bp):   
TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
AAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCTCGATAT
GCCCAAAATAACAAGTGTTCCAAA

Done.