Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g03420.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: 2802
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29


Found at i:1746 original size:21 final size:21

Alignment explanation


    Indices: 1720--1784  Score: 94
    Period size: 21  Copynumber: 3.1  Consensus size: 21

       1710 CAGCAATGCA

                          *      
       1720 GTTGATGCGCTGGAGGGAAAG
          1 GTTGATGCGCTGGATGGAAAG

                   *            *
       1741 GTTGATGTGCTGGATGGAAAA
          1 GTTGATGCGCTGGATGGAAAG

              *                  
       1762 GTCGATGCGCTGGATGGAAAG
          1 GTTGATGCGCTGGATGGAAAG

              
       1783 GT
          1 GT

       1785 GGATTACAGC


Statistics
Matches: 38,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   38  1.00

ACGTcount: A:0.25, C:0.09, G:0.43, T:0.23


Consensus pattern (21 bp):   
GTTGATGCGCTGGATGGAAAG

Found at i:1912 original size:93 final size:92

Alignment explanation


    Indices: 1766--2044  Score: 425
    Period size: 93  Copynumber: 3.0  Consensus size: 92

       1756 GGAAAAGTCG

                                                            *                
       1766 ATGCGCTGGATGGAAAGGTGGATTACAGCAGTCAGATAGTTCATGAAATCAAGCCAGAGCAGAAA
          1 ATGCGCTGGATGGAAAGGTGGATTACA-CAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA

                       *            *   
       1831 GATATCTCGAGAGAGGATGTAGATTCCC
         65 GATATCTCGAGGGAGGATGTAGATCCCC

               *                                   *    *                    
       1859 ATGTGCTGGATGGAAAGGTGGATTACACCAGTCAGATAGGTCATCAAAACAAGCCAGAGCAGAAA
          1 ATGCGCTGGATGGAAAGGTGGATTACA-CAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA

                                         
       1924 GATATC-CTGAGGGAGGATGTAGATCCCC
         65 GATATCTC-GAGGGAGGATGTAGATCCCC

                *                     *                                      
       1952 ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
          1 ATGCGCTGGATGGAAAGGTGGATTA-CACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA

                   *      *             
       2017 GATATCTTGAGGGAAGATGTAGATCCCC
         65 GATATCTCGAGGGAGGATGTAGATCCCC

       2045 TTAGAATTCA


Statistics
Matches: 169,  Mismatches: 14, Indels: 6
        0.89            0.07        0.03

Matches are distributed among these distances:
  92    1  0.01
  93  167  0.99
  94    1  0.01

ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20


Consensus pattern (92 bp):   
ATGCGCTGGATGGAAAGGTGGATTACACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAAG
ATATCTCGAGGGAGGATGTAGATCCCC

Found at i:2767 original size:54 final size:54

Alignment explanation


    Indices: 2685--2796  Score: 161
    Period size: 54  Copynumber: 2.1  Consensus size: 54

       2675 GAGCTGTGAT

                                         *   *         *          
       2685 TTCAAAGGATGTTTCATCCAAGCAAAAAGTTCAGAAGGTTGACGATACAAAGAC
          1 TTCAAAGGATGTTTCATCCAAGCAAAAAGGTCAAAAGGTTGACCATACAAAGAC

                      *        *                        *       * 
       2739 TTCAAAGGATTTTTCATCCGAGCAAAAAGGTCAAAAGGTTGACCTTACAAAGCC
          1 TTCAAAGGATGTTTCATCCAAGCAAAAAGGTCAAAAGGTTGACCATACAAAGAC

                
       2793 TTCA
          1 TTCA

       2797 GACTAT


Statistics
Matches: 51,  Mismatches: 7, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  54   51  1.00

ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24


Consensus pattern (54 bp):   
TTCAAAGGATGTTTCATCCAAGCAAAAAGGTCAAAAGGTTGACCATACAAAGAC
Done.