Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00124.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: 4492
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:216 original size:51 final size:51

Alignment explanation


    Indices: 103--256  Score: 237
    Period size: 51  Copynumber: 3.1  Consensus size: 51

         93 AAATGGTGCA

                             *                                   
        103 TCTCTTTTGCCTCAAT-TGCACAATCCATACTC-TTTGACTTCTTCTTC-TC-
          1 TCTCTTTTGCCTCAATCAG-ACAATCCATACTCTTTTG-CTTCTTCTTCTTCT

                                                               
        152 -CTCTTTTGCCTCAATCAGACAATCCATACTCTTTTGCTTCTTCTTCTTCT
          1 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTTGCTTCTTCTTCTTCT

                                               *               
        202 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
          1 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTTGCTTCTTCTTCTTCT

                
        253 TCTC
          1 TCTC

        257 GTCAAATGAA


Statistics
Matches: 98,  Mismatches: 2, Indels: 8
        0.91            0.02        0.07

Matches are distributed among these distances:
  48   38  0.39
  49    7  0.07
  51   53  0.54

ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45


Consensus pattern (51 bp):   
TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTTGCTTCTTCTTCTTCT

Found at i:2539 original size:72 final size:73

Alignment explanation


    Indices: 2421--2601  Score: 202
    Period size: 72  Copynumber: 2.5  Consensus size: 73

       2411 TCCCAGAAAT

                 *                            *  **  *                    *  
       2421 TCTACGAAGACCCGAAAAACCTAAAGAGCCTGAAGAGTTCCGTCCATATTCATCGAAATACTCTT
          1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCATCCATATTCATCGAAATACTATT

               *    
       2486 T-CTACCC
         66 TCCCACCC

                  *                                        *       **  *     
       2493 TCTACCGAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCATCCATGTTCATCGTCATCCTATT
          1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCATCCATATTCATCGAAATACTATT

                      
       2558 TCCCCCACCC
         66 T--CCCACCC

             *           *            *       
       2568 TTTACCAAGACCCAAAAAACCTAAAGCGCCTGAA
          1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAA

       2602 GCGAAAAAAG


Statistics
Matches: 90,  Mismatches: 16, Indels: 3
        0.83            0.15        0.03

Matches are distributed among these distances:
  72   55  0.61
  75   35  0.39

ACGTcount: A:0.34, C:0.33, G:0.13, T:0.20


Consensus pattern (73 bp):   
TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCATCCATATTCATCGAAATACTATT
TCCCACCC

Found at i:2613 original size:18 final size:18

Alignment explanation


    Indices: 2590--2628  Score: 69
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       2580 CAAAAAACCT

                              
       2590 AAAGCGCCTGAAGCGAAA
          1 AAAGCGCCTGAAGCGAAA

                         *    
       2608 AAAGCGCCTGAAGTGAAA
          1 AAAGCGCCTGAAGCGAAA

               
       2626 AAA
          1 AAA

       2629 AAAAACGCCC


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   20  1.00

ACGTcount: A:0.49, C:0.18, G:0.26, T:0.08


Consensus pattern (18 bp):   
AAAGCGCCTGAAGCGAAA
Done.