Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4342

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, 328

Length: 547
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31


Found at i:294 original size:44 final size:44

Alignment explanation


    Indices: 244--429  Score: 264
    Period size: 44  Copynumber: 4.2  Consensus size: 44

        234 TGCAACGTCG

                         ***       *             *      
        244 GGGAGATAGGACTCGTAATCTTCAACCTATTCCACTGTTGGTCA
          1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA

                    *                                   
        288 GGGAGATAAGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
          1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA

                 *        **       *                    
        332 GGGAGGTAGGACTTGTAATCTTCGACCTATTCCACTGCTGGTCA
          1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA

                    *                                   
        376 GGGAGATATGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
          1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA

             *        
        420 GAGAGATAGG
          1 GGGAGATAGG

        430 GATGGTATCT


Statistics
Matches: 124,  Mismatches: 18, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  44  124  1.00

ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28


Consensus pattern (44 bp):   
GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA

Found at i:344 original size:88 final size:88

Alignment explanation


    Indices: 244--429  Score: 318
    Period size: 88  Copynumber: 2.1  Consensus size: 88

        234 TGCAACGTCG

                                                 *                           
        244 GGGAGATAGGACTCGTAATCTTCAACCTATTCCACTGTTGGTCAGGGAGATAAGACTTACAATCT
          1 GGGAGATAGGACTCGTAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTTACAATCT

                                   
        309 TCCACCTATTCCACTGCTGGTCA
         66 TCCACCTATTCCACTGCTGGTCA

                 *       *         *                            *            
        332 GGGAGGTAGGACTTGTAATCTTCGACCTATTCCACTGCTGGTCAGGGAGATATGACTTACAATCT
          1 GGGAGATAGGACTCGTAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTTACAATCT

                                   
        397 TCCACCTATTCCACTGCTGGTCA
         66 TCCACCTATTCCACTGCTGGTCA

             *        
        420 GAGAGATAGG
          1 GGGAGATAGG

        430 GATGGTATCT


Statistics
Matches: 91,  Mismatches: 7, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  88   91  1.00

ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28


Consensus pattern (88 bp):   
GGGAGATAGGACTCGTAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTTACAATCT
TCCACCTATTCCACTGCTGGTCA
Done.