Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01556.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, 492

Length: 820
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40


Found at i:192 original size:18 final size:18

Alignment explanation


    Indices: 171--228  Score: 50
    Period size: 18  Copynumber: 3.2  Consensus size: 18

        161 TCGCTTTGTG

                              
        171 TCCCGCTCCAGATCTGCT
          1 TCCCGCTCCAGATCTGCT

                         *       
        189 TCCCCGGCT--AGCTCT-CGT
          1 T-CCC-GCTCCAGATCTGC-T

              *               
        207 TCTCGCTCCAGATCTGCT
          1 TCCCGCTCCAGATCTGCT

                
        225 TCCC
          1 TCCC

        229 CGTCTAGCTC


Statistics
Matches: 30,  Mismatches: 4, Indels: 12
        0.65            0.09        0.26

Matches are distributed among these distances:
  16    3  0.10
  17    3  0.10
  18   17  0.57
  19    4  0.13
  20    3  0.10

ACGTcount: A:0.09, C:0.45, G:0.17, T:0.29


Consensus pattern (18 bp):   
TCCCGCTCCAGATCTGCT

Found at i:221 original size:36 final size:36

Alignment explanation


    Indices: 174--257  Score: 159
    Period size: 36  Copynumber: 2.3  Consensus size: 36

        164 CTTTGTGTCC

                                                
        174 CGCTCCAGATCTGCTTCCCCGGCTAGCTCTCGTTCT
          1 CGCTCCAGATCTGCTTCCCCGGCTAGCTCTCGTTCT

                                 *              
        210 CGCTCCAGATCTGCTTCCCCGTCTAGCTCTCGTTCT
          1 CGCTCCAGATCTGCTTCCCCGGCTAGCTCTCGTTCT

                        
        246 CGCTCCAGATCT
          1 CGCTCCAGATCT

        258 TTCTCCTCTT


Statistics
Matches: 47,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  36   47  1.00

ACGTcount: A:0.10, C:0.42, G:0.18, T:0.31


Consensus pattern (36 bp):   
CGCTCCAGATCTGCTTCCCCGGCTAGCTCTCGTTCT
Done.