Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00184.N2

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: 1946
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31


Found at i:206 original size:26 final size:26

Alignment explanation


    Indices: 175--301  Score: 227
    Period size: 26  Copynumber: 4.9  Consensus size: 26

        165 TGATATCCAT

                          *    *      
        175 GTTAGGTAAATGTTCCATGGTAATGG
          1 GTTAGGTAAATGTTTCATGATAATGG

                                    * 
        201 GTTAGGTAAATGTTTCATGATAATAG
          1 GTTAGGTAAATGTTTCATGATAATGG

                                      
        227 GTTAGGTAAATGTTTCATGATAATGG
          1 GTTAGGTAAATGTTTCATGATAATGG

                                      
        253 GTTAGGTAAATGTTTCATGATAATGG
          1 GTTAGGTAAATGTTTCATGATAATGG

                                   
        279 GTTAGGTAAATGTTTCATGATAA
          1 GTTAGGTAAATGTTTCATGATAA

        302 GAATATCATG


Statistics
Matches: 97,  Mismatches: 4, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   97  1.00

ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38


Consensus pattern (26 bp):   
GTTAGGTAAATGTTTCATGATAATGG

Found at i:1418 original size:137 final size:136

Alignment explanation


    Indices: 1170--1455  Score: 509
    Period size: 137  Copynumber: 2.1  Consensus size: 136

       1160 GAGTAGTCTC

                                   *                       *                 
       1170 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
          1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT

                                                                             
       1235 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
         66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA

                  
       1300 CTATTA
        131 CTATTA

                                                                             
       1306 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC

                                                      *                      
       1371 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC

               *   
       1436 ACTGTTA
        130 ACTATTA

              **         
       1443 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1456 AGGCCCAATG


Statistics
Matches: 143,  Mismatches: 6, Indels: 1
        0.95            0.04        0.01

Matches are distributed among these distances:
 136   20  0.14
 137  123  0.86

ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31


Consensus pattern (136 bp):   
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
CTATTA
Done.