Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00463.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: 3222
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29


Found at i:692 original size:114 final size:112

Alignment explanation


    Indices: 379--848  Score: 457
    Period size: 114  Copynumber: 4.3  Consensus size: 112

        369 TGGAACGGAT

                    *  *  *           *                ***           *       
        379 GTCTCATCTGAAGCTATCTCGGCTGCACAAATGTCTCCAGGAGCAGCTGGGGGAGGGCCTCCTCA
          1 GTCTCATCCGATGCCATCTCGGCTGCCCAAA-GTCTCCAGGAGGTTCT-GGGGAGGGTCTCCTCA

              *                                  *          *
        444 GGTTCAGCATTCTGGACTGTTGGGCACTGCCTCTGGACTCATCAAGCAA
         64 GGCTCAGCATTCTGGACTGTTGGGCACTGCCTCTGGATTCATCAAGCAG

            *    *                            *                              
        493 ATCTCTTCCGATGCCATCTCGGCTGCCCAAA--CCCCAGGAGTGTT-TGAGGGAGGGTCTCCTCA
          1 GTCTCATCCGATGCCATCTCGGCTGCCCAAAGTCTCCAGGAG-GTTCTG-GGGAGGGTCTCCTCA

                    *     *         **                    *  
        555 GGCTCAGCCTTCTGAACTGTTGGGTGCTGCCTCTGGATTCATCAAGGAG
         64 GGCTCAGCATTCTGGACTGTTGGGCACTGCCTCTGGATTCATCAAGCAG

                    *             *                                          
        604 GTCTCATCTGATGCCATCTCGGTTGCCCAAATGTCTCCAGGAGGTTCTGGGGAAGGGTCTCCTCA
          1 GTCTCATCCGATGCCATCTCGGCTGCCCAAA-GTCTCCAGGAGGTTCTGGGG-AGGGTCTCCTCA

                   *                            *            
        669 GGCTCAGTATTCTGGACTGTTGGGCACTGCCTCTGGGTTCATCAAGCAG
         64 GGCTCAGCATTCTGGACTGTTGGGCACTGCCTCTGGATTCATCAAGCAG

                                **                                     *  *  
        718 GTCTCATCCGATGCCATCTCAACTGCCCAAAGCTCTCCAGGA-G---T------GG-CTACTGAG
          1 GTCTCATCCGATGCCATCTCGGCTGCCCAAAG-TCTCCAGGAGGTTCTGGGGAGGGTCTCCTCAG

                                 *  **             *         
        772 G-TCCAGCATTCTGGACTGTTCGGTGCTGCCTCTGGATTGATCAAGCAG
         65 GCT-CAGCATTCTGGACTGTTGGGCACTGCCTCTGGATTCATCAAGCAG

                    *      *    *        
        820 GTCTCATCTGATGCCGTCTCAGCTGCCCA
          1 GTCTCATCCGATGCCATCTCGGCTGCCCA

        849 TAATGTGGCT


Statistics
Matches: 301,  Mismatches: 46, Indels: 30
        0.80            0.12        0.08

Matches are distributed among these distances:
 101    1  0.00
 102   72  0.24
 103    2  0.01
 110    2  0.01
 111   91  0.30
 113    8  0.03
 114  125  0.42

ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26


Consensus pattern (112 bp):   
GTCTCATCCGATGCCATCTCGGCTGCCCAAAGTCTCCAGGAGGTTCTGGGGAGGGTCTCCTCAGG
CTCAGCATTCTGGACTGTTGGGCACTGCCTCTGGATTCATCAAGCAG

Found at i:2304 original size:18 final size:18

Alignment explanation


    Indices: 2281--2382  Score: 114
    Period size: 18  Copynumber: 5.7  Consensus size: 18

       2271 GGTTGGAGGT

                              
       2281 GATTTGAGTAAGCTTGGC
          1 GATTTGAGTAAGCTTGGC

                          *  *
       2299 GATTTGAGTAAGCTCGGA
          1 GATTTGAGTAAGCTTGGC

                  * * *       
       2317 GATTTGTGCATGCTTGGC
          1 GATTTGAGTAAGCTTGGC

                 *    *      *
       2335 GATTTCAGTACGCTTGGA
          1 GATTTGAGTAAGCTTGGC

             *            *   
       2353 GGTTTGAGTAAGCTCGGC
          1 GATTTGAGTAAGCTTGGC

                        
       2371 GATTTGAGTAAG
          1 GATTTGAGTAAG

       2383 ATTGATGATC


Statistics
Matches: 66,  Mismatches: 18, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  18   66  1.00

ACGTcount: A:0.22, C:0.13, G:0.33, T:0.32


Consensus pattern (18 bp):   
GATTTGAGTAAGCTTGGC

Done.