Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g02260.F2

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: 2932
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25


Found at i:1212 original size:90 final size:90

Alignment explanation


    Indices: 833--1200  Score: 610
    Period size: 90  Copynumber: 4.1  Consensus size: 90

        823 AATGTTTGAA

                                       *                      *        *     
        833 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCTGATTGGACTTCCTT
          1 CGTCGCCGTCTTCTCCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT

                                     
        898 TTTAGAACGAAACAAGGAATGGAAT
         66 TTTAGAACGAAACAAGGAATGGAAT

                          *            *                         *           
        923 CGTCGCCGTCTTCTTCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
          1 CGTCGCCGTCTTCTCCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT

                                     
        988 TTTAGAACGAAACAAGGAATGGAAT
         66 TTTAGAACGAAACAAGGAATGGAAT

                 *        *                                                  
       1013 CGTCGTCGTCTTCTTCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
          1 CGTCGCCGTCTTCTCCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT

                           *         
       1078 TTTAGAACGAAACAAAGAATGGAAT
         66 TTTAGAACGAAACAAGGAATGGAAT

                 *                                                        *  
       1103 CGTCGTCGTCTTCTCCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCATT
          1 CGTCGCCGTCTTCTCCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT

                     *              *
       1168 TTTAGAACGGAACAAGGAATGGAAC
         66 TTTAGAACGAAACAAGGAATGGAAT

              *     
       1193 CGCCGCCG
          1 CGTCGCCG

       1201 GATGCTCCAA


Statistics
Matches: 263,  Mismatches: 15, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  90  263  1.00

ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27


Consensus pattern (90 bp):   
CGTCGCCGTCTTCTCCAAGACGAAGATAGACTTCCGGTTATTGGCCATTCCGATTGGACATCCTT
TTTAGAACGAAACAAGGAATGGAAT

Found at i:2325 original size:51 final size:51

Alignment explanation


    Indices: 2265--2665  Score: 516
    Period size: 51  Copynumber: 7.9  Consensus size: 51

       2255 AAAACTGAAG

                *     *        *    *                   *      
       2265 ACAAAGGGTTGATCCCTACGTCCCTAGATGTTCCCGCTAGTAAATCCGAAA
          1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

                                                          *    
       2316 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCTGAAA
          1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

                                                               
       2367 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
          1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

               *    *             *                            
       2418 ACAGTGGGCTCATCCCTACCTCTCCAGATGTTCCCGCTAGTAAACCCGAAA
          1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

               *       *               *         *              
       2469 ACAGTGAGG-TGATCCCTACCTCCCCAAATGTTCCCGTTAGTAAACCCGAAA
          1 ACAATG-GGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

                                            *   *              
       2520 ACAATGGGTTCATCCCTACCTCCCCAGATGTTTCCGTTAGTAAACCCGAAA
          1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

               *      *       *   *      *  *             *    
       2571 ACAGTGGGTTGATCCCTATCTCTCCAGATCTTTCCGCTAGTAAACCTGAAA
          1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

                    * **  *   *       *  *  *           
       2622 ACAATGGGGTGGTCTCTATCTCCCCAAATCTTTCCGCTAGTAAA
          1 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAA

       2666 GCCGCACACA


Statistics
Matches: 317,  Mismatches: 31, Indels: 4
        0.90            0.09        0.01

Matches are distributed among these distances:
  50    2  0.01
  51  313  0.99
  52    2  0.01

ACGTcount: A:0.27, C:0.31, G:0.17, T:0.24


Consensus pattern (51 bp):   
ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA

Found at i:2738 original size:21 final size:21

Alignment explanation


    Indices: 2714--2782  Score: 120
    Period size: 21  Copynumber: 3.3  Consensus size: 21

       2704 ACACAAGAAA

                                 
       2714 AAGAAGCACCATGGGAAAGGG
          1 AAGAAGCACCATGGGAAAGGG

                          *      
       2735 AAGAAGCACCATGGAAAAGGG
          1 AAGAAGCACCATGGGAAAGGG

                        *        
       2756 AAGAAGCACCATAGGAAAGGG
          1 AAGAAGCACCATGGGAAAGGG

                  
       2777 AAGAAG
          1 AAGAAG

       2783 AAAGGGAAGA


Statistics
Matches: 45,  Mismatches: 3, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  21   45  1.00

ACGTcount: A:0.48, C:0.13, G:0.35, T:0.04


Consensus pattern (21 bp):   
AAGAAGCACCATGGGAAAGGG
Done.