Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00743.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, 723

Length: 1206
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29


Found at i:447 original size:135 final size:138

Alignment explanation


    Indices: 177--458  Score: 509
    Period size: 135  Copynumber: 2.1  Consensus size: 138

        167 TAGTCTCCCC

                                                                             
        177 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
          1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT

                                                             *          *    
        242 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATCACT
         66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT

                    
        307 GTTACC-G
        131 GTTACCTG

                                 *                                           
        314 AAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
          1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT

                                                                             
        378 TATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
         66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT

                    
        442 GTTACCTG
        131 GTTACCTG

                      
        450 -AATGGGCTT
          1 AAATGGGCTT

        459 AGGCCCAATG


Statistics
Matches: 141,  Mismatches: 3, Indels: 4
        0.95            0.02        0.03

Matches are distributed among these distances:
 135   66  0.47
 136   58  0.41
 137   17  0.12

ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33


Consensus pattern (138 bp):   
AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
GTTACCTG

Found at i:845 original size:89 final size:90

Alignment explanation


    Indices: 716--891  Score: 194
    Period size: 96  Copynumber: 1.9  Consensus size: 90

        706 ACCATAAACC

                    *                  **      *     *                       
        716 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT-CTAATCTCCCTGAAGTTGCAG
          1 TTATCTCCATGAAGTTGCAGTGGAGCAAATTGAAACTACAAATACTAATCTCCCTGAAGTTGCAG

                 *                   
        780 TGGAGTAGACTGAAGATAGCGAATT
         66 TGGAGCAGACTGAAGATAGCGAATT

                             *                 *                 *           
        805 TTATCTCCATGAAGTTGTAGTAGG-GCAAATTGAAGCTACAAATCACAAACCTTATCTCCCTGAA
          1 TTATCTCCATGAAGTTGCAGT-GGAGCAAATTGAAACTACAAAT-----A-CTAATCTCCCTGAA

                                   
        869 GTTGCAGTGGAGCAGACTGAAGA
         59 GTTGCAGTGGAGCAGACTGAAGA

        892 AAGTAGACCT


Statistics
Matches: 70,  Mismatches: 9, Indels: 9
        0.80            0.10        0.10

Matches are distributed among these distances:
  89   33  0.47
  90    2  0.03
  96   35  0.50

ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27


Consensus pattern (90 bp):   
TTATCTCCATGAAGTTGCAGTGGAGCAAATTGAAACTACAAATACTAATCTCCCTGAAGTTGCAG
TGGAGCAGACTGAAGATAGCGAATT
Done.