Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01019.F2

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, 1000

Length: 2221
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27


Found at i:251 original size:18 final size:18

Alignment explanation


    Indices: 228--420  Score: 217
    Period size: 18  Copynumber: 10.7  Consensus size: 18

        218 GCATGATTTG

                         *    
        228 AACTTGGAGCACAGTGCA
          1 AACTTGGAGCACAATGCA

                    *  *     *
        246 AACTTGGAACAAAATGCG
          1 AACTTGGAGCACAATGCA

                         *    
        264 AACTTGGAGCACATTGCA
          1 AACTTGGAGCACAATGCA

                               
        282 AACTTGGAGCAC-ATGGCA
          1 AACTTGGAGCACAAT-GCA

                              
        300 AACTTGGAGCACAATGCA
          1 AACTTGGAGCACAATGCA

                       * *   *
        318 AACTTGGAGCATATTGCG
          1 AACTTGGAGCACAATGCA

                 **    * *    
        336 AACTTACAGCAGATTGCA
          1 AACTTGGAGCACAATGCA

                              
        354 AACTTGGAGCACAATGCA
          1 AACTTGGAGCACAATGCA

                 *       *   *
        372 AACTTAGAGCACATTGCT
          1 AACTTGGAGCACAATGCA

                             *
        390 AACTTGGAGCACAATGCT
          1 AACTTGGAGCACAATGCA

                 *       
        408 AACTTAGAGCACA
          1 AACTTGGAGCACA

        421 GTGTGGACTC


Statistics
Matches: 147,  Mismatches: 26, Indels: 4
        0.83            0.15        0.02

Matches are distributed among these distances:
  17    1  0.01
  18  144  0.98
  19    2  0.01

ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20


Consensus pattern (18 bp):   
AACTTGGAGCACAATGCA

Found at i:436 original size:54 final size:54

Alignment explanation


    Indices: 228--420  Score: 244
    Period size: 54  Copynumber: 3.6  Consensus size: 54

        218 GCATGATTTG

                         *            *  *     *                  
        228 AACTTGGAGCACAGTGCAAACTTGGAACAAAATGCGAACTTGGAGCACATTGCA
          1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA

                                                            *     *
        282 AACTTGGAGCAC-ATGGCAAACTTGGAGCACAATGCAAACTTGGAGCATATTGCG
          1 AACTTGGAGCACAAT-GCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA

                 **    * *                           *           *
        336 AACTTACAGCAGATTGCAAACTTGGAGCACAATGCAAACTTAGAGCACATTGCT
          1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA

                             *     *       
        390 AACTTGGAGCACAATGCTAACTTAGAGCACA
          1 AACTTGGAGCACAATGCAAACTTGGAGCACA

        421 GTGTGGACTC


Statistics
Matches: 118,  Mismatches: 19, Indels: 4
        0.84            0.13        0.03

Matches are distributed among these distances:
  53    1  0.01
  54  116  0.98
  55    1  0.01

ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20


Consensus pattern (54 bp):   
AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
Done.