Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1574

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, 922

Length: 1538
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31

Warning! 16 characters in sequence are not A, C, G, or T


Found at i:1452 original size:350 final size:349

Alignment explanation


    Indices: 791--1491  Score: 978
    Period size: 350  Copynumber: 2.0  Consensus size: 349

        781 TTTTCGTGAA

                  *                                                 *        
        791 ATTTTGGAGGAAATCACACCTCGAAACCTTCATTTTATCATCAAATTCGATATTTTTGAGTCCGC
          1 ATTTTGAAGGAAATCACACCTCGAAACCTTCATTTTATCATCAAATTCGATATTTTGGAGTCCGC

                                   *        *                                
        856 AAATTGGCAACGCTGCCGCGGGGGGCAAAAAATTTTGTATGGGCATGAAAATTTCAGAAAAGTCA
         66 AAATTGGCAACGCTGCCGCGGGGAGCAAAAAAATTTGTATGGGCATGAAAATTTCAGAAAAGTCA

                           *  *           *             *                    
        921 CATCTTATACCAGGTTAATACATACTAAAAGTTCAGATCGGTCACGGCAAGGATGAGAGAGAAAA
        131 CATCTTATACCAGGTAAAAACATACTAAAAATTCAGATCGGTCAAGGCAAGGATGAGAGAGAAAA

                               *                     *         *       *     
        986 GGTTCAACTTGCCGCCCCGTGCTCAGTGTGCTATTTTACCCTTAAAAAACCGCAAAAATTCGATT
        196 GGTTCAACTTGCCGCCCCGGGCTCAGTGTGCTATTTTACCCCTAAAAAACCACAAAAATGCGATT

                        *                        *      *                 *  
       1051 ATTTTTCAAAAATCTCAAACACTCTACTTCGAAATTGGCCAAAACCCCATCAGGCAGTACCCTAC
        261 ATTTTTCAAAAAGCTCAAACACTCTACTTCGAAATTGCCCAAAAACCCATCAGGCAGTACCCCAC

                  *     *           
       1116 TACAACTTACAATTTGAATTTTTG
        326 TACAACCTACAACTTGAATTTTTG

                                                       *                     
       1140 ATTTTGAATGGAAATCACA-CTCCGAAACCTTCATTTTATCATTAAATTCGATATTTTGGAGTCC
          1 ATTTTGAA-GGAAATCACACCT-CGAAACCTTCATTTTATCATCAAATTCGATATTTTGGAGTCC

                *                                                            
       1204 GCAACTTGGCAACGCTGCCGC-GGGAGCAAAAAAATTTGTATGGGCATGAAAATTTCAGAAAAGT
         64 GCAAATTGGCAACGCTGCCGCGGGGAGCAAAAAAATTTGTATGGGCATGAAAATTTCAGAAAAGT

             *                                                         *    *
       1268 CCCATCTTATACCAGGTAAAAACATACTAAAAATTCAGATCGGTCAAGGCAAGGATGAGGGAGAG
        129 CACATCTTATACCAGGTAAAAACATACTAAAAATTCAGATCGGTCAAGGCAAGGATGAGAGAGAA

            **    *  *   *     *         * *                                 
       1333 GGGGTTTAATTTGTCGCCCGGAGGC-CAATTTTGCTATTTTACCCCTAAAAAACCACAAAAATGC
        194 AAGGTTCAACTTGCCGCCCCG-GGCTC-AGTGTGCTATTTTACCCCTAAAAAACCACAAAAATGC

                       * **     **         *                           *     
       1397 GATTATTTTTCGAGGAGCTCCGACAAC-CTATTTCGAAATTGCCCAAAAACCCATCAGGGAGTAC
        257 GATTATTTTTCAAAAAGCTCAAAC-ACTCTACTTCGAAATTGCCCAAAAACCCATCAGGCAGTAC

                         *               
       1461 CCCACTACAACCTCCAACTTGAATTTTTG
        321 CCCACTACAACCTACAACTTGAATTTTTG

              
       1490 AT
          1 AT

       1492 GTACAACAAA


Statistics
Matches: 308,  Mismatches: 39, Indels: 9
        0.87            0.11        0.03

Matches are distributed among these distances:
 349  124  0.40
 350  182  0.59
 351    2  0.01

ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27


Consensus pattern (349 bp):   
ATTTTGAAGGAAATCACACCTCGAAACCTTCATTTTATCATCAAATTCGATATTTTGGAGTCCGC
AAATTGGCAACGCTGCCGCGGGGAGCAAAAAAATTTGTATGGGCATGAAAATTTCAGAAAAGTCA
CATCTTATACCAGGTAAAAACATACTAAAAATTCAGATCGGTCAAGGCAAGGATGAGAGAGAAAA
GGTTCAACTTGCCGCCCCGGGCTCAGTGTGCTATTTTACCCCTAAAAAACCACAAAAATGCGATT
ATTTTTCAAAAAGCTCAAACACTCTACTTCGAAATTGCCCAAAAACCCATCAGGCAGTACCCCAC
TACAACCTACAACTTGAATTTTTG
Done.