Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g02748.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, 1000

Length: 3533
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25


Found at i:2218 original size:33 final size:33

Alignment explanation


    Indices: 2176--2315  Score: 176
    Period size: 33  Copynumber: 4.2  Consensus size: 33

       2166 CCTGTAGCAG

                                             
       2176 CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC
          1 CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC

                          *  *      *        *
       2209 CAGGTGAGGGGAAACGTAAATCCACTGCAAAA-G
          1 CAGGTGAGGGGAAAGGTGAATCCATTG-AAAATC

                         *                   
       2242 CAGGTGAGGGGAAGGGTGAATCCATTGAAAATC
          1 CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC

                                       *    **
       2275 CAGGTGA-GGGAGAAGGTGAATCCATTAAAAAGG
          1 CAGGTGAGGGGA-AAGGTGAATCCATTGAAAATC

                    
       2308 CAGGTGAG
          1 CAGGTGAG

       2316 AAAAGTAAAG


Statistics
Matches: 90,  Mismatches: 13, Indels: 7
        0.82            0.12        0.06

Matches are distributed among these distances:
  32    8  0.09
  33   78  0.87
  34    4  0.04

ACGTcount: A:0.36, C:0.13, G:0.35, T:0.16


Consensus pattern (33 bp):   
CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC

Found at i:2297 original size:66 final size:65

Alignment explanation


    Indices: 2174--2315  Score: 205
    Period size: 66  Copynumber: 2.2  Consensus size: 65

       2164 CACCTGTAGC

                                                                          *  
       2174 AGCAGGTGAGGGGAAAGGTGAATCCATTGAAAATCCAGGTGAGGGGAAACGTAAATCCACTGCAA
          1 AGCAGGTGAGGGGAAAGGTGAATCCATTGAAAATCCAGGTGAGGGGAAACGTAAATCCA-TGAAA

             
       2239 A
         65 A

                           *                                  *  *       *   
       2240 AGCAGGTGAGGGGAAGGGTGAATCCATTGAAAATCCAGGTGA-GGGAGAAGGTGAATCCATTAAA
          1 AGCAGGTGAGGGGAAAGGTGAATCCATTGAAAATCCAGGTGAGGGGA-AACGTAAATCCATGAAA

             
       2304 A
         65 A

                       
       2305 AGGCAGGTGAG
          1 A-GCAGGTGAG

       2316 AAAAGTAAAG


Statistics
Matches: 69,  Mismatches: 5, Indels: 4
        0.88            0.06        0.05

Matches are distributed among these distances:
  65    9  0.13
  66   60  0.87

ACGTcount: A:0.37, C:0.13, G:0.35, T:0.15


Consensus pattern (65 bp):   
AGCAGGTGAGGGGAAAGGTGAATCCATTGAAAATCCAGGTGAGGGGAAACGTAAATCCATGAAAA
Done.