Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01525.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, 873

Length: 1455
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28


Found at i:305 original size:27 final size:27

Alignment explanation


    Indices: 109--359  Score: 241
    Period size: 27  Copynumber: 9.3  Consensus size: 27

         99 TTCTGCCTTC

                    *     *  *  *  *   
        109 GGCACTCCTTCTTCCACCCCTGCCTTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

                    *     *  *     *   
        136 GGCACTCCTTCTTCCACCCCGGCCTTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

              *     *     *  *     *   
        163 GGAACTCCTTCTTCAACTCCGGCTTTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

              **  * *     *        *   
        190 GGGGCTACTTCTTCCACACCGGCATTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

                                       
        217 GGCACTCCGTCTTCGACACCGGCGTTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

                    *                  
        244 GGCACTCCATCTTCGACACCGGCGTTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

                                *      
        271 GGCACTCCGTCTTCGACACCTGCGTTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

              **                   *   
        298 GGGGCTCCGTCTTCGACACCGGCATTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

              *        *           *   
        325 GGAACTCCGTCCTCGACACCGGCTTTT
          1 GGCACTCCGTCTTCGACACCGGCGTTT

              *     
        352 GGAACTCC
          1 GGCACTCC

        360 CTCAACGCCG


Statistics
Matches: 196,  Mismatches: 28, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  27  196  1.00

ACGTcount: A:0.12, C:0.38, G:0.21, T:0.29


Consensus pattern (27 bp):   
GGCACTCCGTCTTCGACACCGGCGTTT

Found at i:359 original size:81 final size:81

Alignment explanation


    Indices: 112--359  Score: 280
    Period size: 81  Copynumber: 3.1  Consensus size: 81

        102 TGCCTTCGGC

                          *     *           *     *  *     *           *     
        112 ACTCCTTCTTCCACCCCTGCCTTTGGCACTCCTTCTTCCACCCCGGCCTTTGGAACTCCTTCTTC
          1 ACTCCTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCCATCTTC

            *  *           *
        177 AACTCCGGCTTTTGGG
         66 GACACCGGCTTTTGGA

            *  *             *                             *     *           
        193 GCTACTTCTTCCACACCGGCATTTGGCACTCCGTCTTCGACACCGGCGTTTGGCACTCCATCTTC
          1 ACTCCTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCCATCTTC

                     *     *
        258 GACACCGGCGTTTGGC
         66 GACACCGGCTTTTGGA

                 *     *        *     **                               *  *  
        274 ACTCCGTCTTCGACACCTGCGTTTGGGGCTCCGTCTTCGACACCGGCATTTGGAACTCCGTCCTC
          1 ACTCCTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCCATCTTC

                            
        339 GACACCGGCTTTTGGA
         66 GACACCGGCTTTTGGA

                 
        355 ACTCC
          1 ACTCC

        360 CTCAACGCCG


Statistics
Matches: 138,  Mismatches: 29, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  81  138  1.00

ACGTcount: A:0.12, C:0.38, G:0.20, T:0.29


Consensus pattern (81 bp):   
ACTCCTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCCATCTTC
GACACCGGCTTTTGGA
Done.