Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g02402.F5

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: 5707
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33


Found at i:3119 original size:210 final size:209

Alignment explanation


    Indices: 2752--3563  Score: 1313
    Period size: 210  Copynumber: 3.9  Consensus size: 209

       2742 ACAATGTTAT

                           *               *                                 
       2752 TCTCTTGAAAAGCTTAGCATTTTCC-GTTGTGAAAAATTAAGCAAGATTGGAGATGGATTATCTA
          1 TCTCTTGAAAAGCTTCGCA-TTTCCAGTTGTAAAAAATTAAGCAAGATTGGAGATGGATTATCTA

                                                                             
       2816 CCTCCACTTGTCTCAAAGAATTAGAGCTAGAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTG
         65 CCTCCACTTGTCTCAAAGAATTAGAGCTAGAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTG

                  *                                   *       *           *  
       2881 GAAGGACTTTCCTCTCTTCAATATCTGTCAGTTCGAGTGTGCTACAAATTTGAAGTTCTTCCTAT
        130 GAAGGATTTTCCTCTCTTCAATATCTGTCAGTTCGAGT-TGCAACAAATTGGAAGTTCTTCCAAT

               *     *      
       2946 AACCGGAGGGTGTTCA
        194 AACTGGAGGATGTTCA

                                                                             
       2962 TCTCTTGAAAAGCTTCGCATTTCCAGTTGTAAAAAATTAAGCAAGATTGGAGATGGATTATCTAC
          1 TCTCTTGAAAAGCTTCGCATTTCCAGTTGTAAAAAATTAAGCAAGATTGGAGATGGATTATCTAC

                                    **    *                                  
       3027 CTCCACTTGTCTCAAAGAATTAGATTTAGACGATTGTCCTAATTTAAGTTCGATCCCAAATTTGG
         66 CTCCACTTGTCTCAAAGAATTAGAGCTAGAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTGG

                                *            *                         *     
       3092 AAGGATTTTCCTCTCTTCAAGATCTGTCAGTTCTACGTTGCAACAAATTGGAAGTTCTTACAATA
        131 AAGGATTTTCCTCTCTTCAATATCTGTCAGTTCGA-GTTGCAACAAATTGGAAGTTCTTCCAATA

                           
       3157 ACTGGAGGATGTTCA
        195 ACTGGAGGATGTTCA

                   *  *     *                                                
       3172 TCTCTTGTAATGCTTCTCATTTCCAGTTGTAAAAAATTAAGCAAGATTGGAGATGGATTATCTAC
          1 TCTCTTGAAAAGCTTCGCATTTCCAGTTGTAAAAAATTAAGCAAGATTGGAGATGGATTATCTAC

                                    *   *                                    
       3237 CTCCACTTGTCTCAAAGAATTAGATCTAAAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTGG
         66 CTCCACTTGTCTCAAAGAATTAGAGCTAGAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTGG

                                 *      *                                    
       3302 AAGGATTTTCCTCTCTTCAATTTCTGTCTGTT-GAAAGTTGCAACAAATTGGAAGTTCTTCCAAT
        131 AAGGATTTTCCTCTCTTCAATATCTGTCAGTTCG--AGTTGCAACAAATTGGAAGTTCTTCCAAT

                            
       3366 AACTGGAGGATGTTCA
        194 AACTGGAGGATGTTCA

                     **                   *                                  
       3382 TCTCTTGAAGGGCTTCGCATTTCCAGTTGTGAAAAATTAAGCAAGATTGGAGATGGATTATCTAC
          1 TCTCTTGAAAAGCTTCGCATTTCCAGTTGTAAAAAATTAAGCAAGATTGGAGATGGATTATCTAC

                                                                             
       3447 CTCCACTTGTCTCAAAGAATTAGAGCTAGAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTGG
         66 CTCCACTTGTCTCAAAGAATTAGAGCTAGAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTGG

                                             *       *    *     
       3512 AAGGATTTTCCTCTCTTCAATATCTGTCAGTTCAATGTTGCGACAAGTTGGA
        131 AAGGATTTTCCTCTCTTCAATATCTGTCAGTTCGA-GTTGCAACAAATTGGA

       3564 GAGCTTTCCA


Statistics
Matches: 559,  Mismatches: 37, Indels: 12
        0.92            0.06        0.02

Matches are distributed among these distances:
 209    6  0.01
 210  550  0.98
 211    3  0.01

ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34


Consensus pattern (209 bp):   
TCTCTTGAAAAGCTTCGCATTTCCAGTTGTAAAAAATTAAGCAAGATTGGAGATGGATTATCTAC
CTCCACTTGTCTCAAAGAATTAGAGCTAGAAGATTGTCCTAATTTAAGTTCGATCCCAAATTTGG
AAGGATTTTCCTCTCTTCAATATCTGTCAGTTCGAGTTGCAACAAATTGGAAGTTCTTCCAATAA
CTGGAGGATGTTCA

Found at i:4808 original size:17 final size:17

Alignment explanation


    Indices: 4786--4818  Score: 50
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       4776 CTTTATTAGG

                              
       4786 AAATTTCTT-TTCTTTTC
          1 AAATTT-TTATTCTTTTC

                            
       4803 AAATTTTTATTCTTTT
          1 AAATTTTTATTCTTTT

       4819 GTATTTGAGA


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

Matches are distributed among these distances:
  16    2  0.13
  17   13  0.87

ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67


Consensus pattern (17 bp):   
AAATTTTTATTCTTTTC
Done.