Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00312.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: 3456
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27


Found at i:1076 original size:27 final size:27

Alignment explanation


    Indices: 1035--1386  Score: 623
    Period size: 27  Copynumber: 13.0  Consensus size: 27

       1025 AAATCAGAAG

                     **                
       1035 AGAAATCTAAAGCTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                       
       1062 AGAAATCTACTGCTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                       
       1089 AGAAATCTACTGCTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                           *           
       1116 AGAAATCTACTGCTATTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                       
       1143 AGAAATCTACTGCTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                           *           
       1170 AGAAATCTACTGCTATTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                       
       1197 AGAAATCTACTGCTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                     * 
       1224 AGAAATCTACTGCTACTGAGTCGAGAA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                       
       1251 AGAAATCTACTGCTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                       
       1278 AGAAATCTACTGCTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                 *                *    
       1305 AGAAACCTACTGCTACTGAGTCAAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                                  *    
       1332 AGAAATCTACTGCTACTGAGTCAAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

                        *              
       1359 AGAAATCTACTGGTACTGAGTCGAGCA
          1 AGAAATCTACTGCTACTGAGTCGAGCA

             
       1386 A
          1 A

       1387 TAATTTGACC


Statistics
Matches: 312,  Mismatches: 13, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  27  312  1.00

ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22


Consensus pattern (27 bp):   
AGAAATCTACTGCTACTGAGTCGAGCA

Found at i:2878 original size:33 final size:33

Alignment explanation


    Indices: 2818--2880  Score: 99
    Period size: 33  Copynumber: 1.9  Consensus size: 33

       2808 GTACTGCTAG

                                  *          
       2818 ATCACCTGCTAAATTACCCAAAGCCACTCCTAA
          1 ATCACCTGCTAAATTACCCAAACCCACTCCTAA

                              **          
       2851 ATCACCTGCTAAATTACCGGAACCCACTCC
          1 ATCACCTGCTAAATTACCCAAACCCACTCC

       2881 CACACCTGGT


Statistics
Matches: 27,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  33   27  1.00

ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21


Consensus pattern (33 bp):   
ATCACCTGCTAAATTACCCAAACCCACTCCTAA
Done.