Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g01961.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: 4092
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27


Found at i:3257 original size:25 final size:25

Alignment explanation


    Indices: 3225--3274  Score: 82
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       3215 GAAGGTTGCC

                                     
       3225 ACCGGTGAAGCTGAGATAAGGAAGT
          1 ACCGGTGAAGCTGAGATAAGGAAGT

                      *      *       
       3250 ACCGGTGAAGTTGAGATGAGGAAGT
          1 ACCGGTGAAGCTGAGATAAGGAAGT

       3275 TAAGGAATTG


Statistics
Matches: 23,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  25   23  1.00

ACGTcount: A:0.34, C:0.10, G:0.38, T:0.18


Consensus pattern (25 bp):   
ACCGGTGAAGCTGAGATAAGGAAGT

Found at i:3571 original size:117 final size:116

Alignment explanation


    Indices: 3354--3653  Score: 374
    Period size: 117  Copynumber: 2.6  Consensus size: 116

       3344 GAAAGTTCGG

                                        *       *            *       *       
       3354 AGAGAAGCTTGCTACTTGTGAAGCTGAGGTGAGGAACTCTAGGGA-T-ACT-AGGCATGCAAAAA
          1 AGAGAAGCTTGCTACTTGTGAAGCTGAGCTGAGGAAATCTAGGGATTCAATGAGGCAGGCAAAAA

                                          *  *                 
       3416 TGCATGGACTGAATCCATTTCAAGGCTAGAGCATGAAAATGGACACCTTAA
         66 TGCATGGACTGAATCCATTTCAAGGCTAGAACACGAAAATGGACACCTTAA

                           *       *                                       * 
       3467 AGAGAAGCTTGCTACCTGTGAAGTTGAGCTGAGGAAATCTAGGGATTCAATGGAGGCAGGCAAGA
          1 AGAGAAGCTTGCTACTTGTGAAGCTGAGCTGAGGAAATCTAGGGATTCAAT-GAGGCAGGCAAAA

              *                                        ** *     
       3532 ATTCATGGACTGAATCCATTTCAAGGCTAGAACACGAAAATGGTGAGCTTAA
         65 ATGCATGGACTGAATCCATTTCAAGGCTAGAACACGAAAATGGACACCTTAA

                        * *                   * *                  *   *     
       3584 AGAGAAGCTTGCCAGTTGTGAAGCTGAGCTGAGGGAGT-TGAGGGATTCAATGAACGCAAGCAAA
          1 AGAGAAGCTTGCTACTTGTGAAGCTGAGCTGAGGAAATCT-AGGGATTCAATG-AGGCAGGCAAA

                  
       3648 AATGCA
         64 AATGCA

       3654 ATGAATGAAT


Statistics
Matches: 158,  Mismatches: 23, Indels: 8
        0.84            0.12        0.04

Matches are distributed among these distances:
 113   41  0.26
 114    1  0.01
 115    2  0.01
 116    2  0.01
 117  112  0.71

ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21


Consensus pattern (116 bp):   
AGAGAAGCTTGCTACTTGTGAAGCTGAGCTGAGGAAATCTAGGGATTCAATGAGGCAGGCAAAAA
TGCATGGACTGAATCCATTTCAAGGCTAGAACACGAAAATGGACACCTTAA

Done.