Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_00142

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, 952

Length: 1587
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25


Found at i:1070 original size:78 final size:78

Alignment explanation


    Indices: 981--1215  Score: 380
    Period size: 78  Copynumber: 3.0  Consensus size: 78

        971 GTCAGGCAGA

                                    *    **                                  
        981 GCCAACTAGTGTGACTCAGAAAACCAATTTAACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
          1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC

                         
       1046 CGGCTTTCTGGAC
         66 CGGCTTTCTGGAC

                                                              *              
       1059 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTATTGAGTCAGAGGGAC
          1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC

                         
       1124 CGGCTTTCTGGAC
         66 CGGCTTTCTGGAC

            *                              *           *             *  *    
       1137 ACCAACTAGTGTGACTCAGAAAACAAATTCGGCTCGTCCTAATCAAGCTACTGAGTCGGAAGGAC
          1 GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC

             *           
       1202 CAGCTTTCTGGAC
         66 CGGCTTTCTGGAC

             
       1215 G
          1 G

       1216 GCATGTCCGT


Statistics
Matches: 145,  Mismatches: 12, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  78  145  1.00

ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23


Consensus pattern (78 bp):   
GCCAACTAGTGTGACTCAGAAAACAAATTCGACTCGTCCTAATGAAGCTACTGAGTCAGAGGGAC
CGGCTTTCTGGAC
Done.