Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00518.F1

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, 742

Length: 1238
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34


Found at i:59 original size:31 final size:31

Alignment explanation


    Indices: 24--139  Score: 132
    Period size: 31  Copynumber: 3.9  Consensus size: 31

         14 TTTACTCTTC

                    *  *                   
         24 TCTCTCATTTTGTTTTCTCTGCTTTCAAAAT
          1 TCTCTCATCTTATTTTCTCTGCTTTCAAAAT

                                   *       
         55 TCTCTCA---T-TTTTCTCTGCTCTCAAAAT
          1 TCTCTCATCTTATTTTCTCTGCTTTCAAAAT

                  *     *                * 
         82 TCTCTCGTCTTAATTTCTCTGCTTTCAAAGT
          1 TCTCTCATCTTATTTTCTCTGCTTTCAAAAT

             *                *        
        113 TTTCTCATCTTATTTTCTTTGCTTTCA
          1 TCTCTCATCTTATTTTCTCTGCTTTCA

        140 GAGTACTTTT


Statistics
Matches: 72,  Mismatches: 9, Indels: 8
        0.81            0.10        0.09

Matches are distributed among these distances:
  27   24  0.33
  28    1  0.01
  30    1  0.01
  31   46  0.64

ACGTcount: A:0.16, C:0.25, G:0.06, T:0.53


Consensus pattern (31 bp):   
TCTCTCATCTTATTTTCTCTGCTTTCAAAAT

Found at i:66 original size:27 final size:27

Alignment explanation


    Indices: 36--120  Score: 98
    Period size: 27  Copynumber: 3.0  Consensus size: 27

         26 TCTCATTTTG

                                       
         36 TTTTCTCTGCTTTCAAAATTCTCTCAT
          1 TTTTCTCTGCTTTCAAAATTCTCTCAT

                       *               * 
         63 TTTTCTCTGCTCTCAAAATTCTCTCGTCT
          1 TTTTCTCTGCTTTCAAAATTCTCTC--AT

                               *  *      
         92 TAATTTCTCTGCTTTCAAAGTTTTCTCAT
          1 T--TTTCTCTGCTTTCAAAATTCTCTCAT

        121 CTTATTTTCT


Statistics
Matches: 48,  Mismatches: 6, Indels: 6
        0.80            0.10        0.10

Matches are distributed among these distances:
  27   24  0.50
  29    3  0.06
  31   21  0.44

ACGTcount: A:0.18, C:0.26, G:0.06, T:0.51


Consensus pattern (27 bp):   
TTTTCTCTGCTTTCAAAATTCTCTCAT
Done.