Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00293.N1

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, 898

Length: 1498
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Found at i:88 original size:21 final size:21

Alignment explanation


    Indices: 40--90  Score: 59
    Period size: 21  Copynumber: 2.4  Consensus size: 21

         30 TTATGAAATT

                                  
         40 GTAACAAAATAGTAAAAAACAA
          1 GTAA-AAAATAGTAAAAAACAA

            **                    
         62 CCAAAAAATAGTAAGAAAAC-A
          1 GTAAAAAATAGTAA-AAAACAA

                    
         83 GTAAAAAA
          1 GTAAAAAA

         91 ATAGAAGTTT


Statistics
Matches: 24,  Mismatches: 4, Indels: 3
        0.77            0.13        0.10

Matches are distributed among these distances:
  21   17  0.71
  22    7  0.29

ACGTcount: A:0.69, C:0.10, G:0.10, T:0.12


Consensus pattern (21 bp):   
GTAAAAAATAGTAAAAAACAA

Found at i:89 original size:22 final size:21

Alignment explanation


    Indices: 40--94  Score: 65
    Period size: 22  Copynumber: 2.6  Consensus size: 21

         30 TTATGAAATT

                *                
         40 GTAACAAAATAGTAAAAAACA
          1 GTAAAAAAATAGTAAAAAACA

            ***                   
         61 ACCAAAAAATAGTAAGAAAACA
          1 GTAAAAAAATAGTAA-AAAACA

                        
         83 GTAAAAAAATAG
          1 GTAAAAAAATAG

         95 AAGTTTCTTT


Statistics
Matches: 26,  Mismatches: 7, Indels: 1
        0.76            0.21        0.03

Matches are distributed among these distances:
  21   11  0.42
  22   15  0.58

ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13


Consensus pattern (21 bp):   
GTAAAAAAATAGTAAAAAACA

Found at i:533 original size:18 final size:18

Alignment explanation


    Indices: 500--534  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

        490 ATACAACTTG

                       *      
        500 TATGCATGCTGTAGCAAT
          1 TATGCATGCTGCAGCAAT

                    *        
        518 TATGCATGTTGCAGCAA
          1 TATGCATGCTGCAGCAA

        535 CATATTTTCT


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31


Consensus pattern (18 bp):   
TATGCATGCTGCAGCAAT
Done.