Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00672.C2

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: 4219
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28


Found at i:2150 original size:24 final size:24

Alignment explanation


    Indices: 2121--2172  Score: 104
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       2111 CATATACTTG

                                    
       2121 TGATAATGCCTCAGCAGTTTTTGA
          1 TGATAATGCCTCAGCAGTTTTTGA

                                    
       2145 TGATAATGCCTCAGCAGTTTTTGA
          1 TGATAATGCCTCAGCAGTTTTTGA

                
       2169 TGAT
          1 TGAT

       2173 GAAGGTACTT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   28  1.00

ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38


Consensus pattern (24 bp):   
TGATAATGCCTCAGCAGTTTTTGA

Found at i:3297 original size:174 final size:174

Alignment explanation


    Indices: 2997--3673  Score: 865
    Period size: 174  Copynumber: 3.9  Consensus size: 174

       2987 CCTCAAGGGT

                             * *                *        *            *      
       2997 CCCCATGCCATATTTTGATTCAGGAAATAGTGATTCCGATGAAGAACTTCCTAAAACACGTTCAA
          1 CCCCATGCCATATTTTGGTCCAGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAA

               *           * *          * *            *  *   *  **          
       3062 AGGTTCATTCAAGCATTGGTTTTTCTCACAAGACAACTGCCTCCCCGAATTCAGGAAAAGGTTCC
         66 AGGCTCATTCAAGCACTAGTTTTTCTCATAGGACAACTGCCTCTCCAAATGCACAAAAAGGTTCC

                     *             *    *  *          * 
       3127 ACTCTTAAAGCTACAGTTTCCTCCGAATTGACGCTAGTTTCTAA
        131 ACTCTTAAAACTACAGTTTCCTCTGAATCGAAGCTAGTTTCTGA

                  *                                                          
       3171 CCCCATACCATATTTTGGTCCAGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAA
          1 CCCCATGCCATATTTTGGTCCAGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAA

                  *         * *                                              
       3236 AGGCTCGTTCAAGCACAATTTTTTCTCATAGGACAACTGCCTCTCCAAATGCACAAAAAGGTTCC
         66 AGGCTCATTCAAGCACTAGTTTTTCTCATAGGACAACTGCCTCTCCAAATGCACAAAAAGGTTCC

                                                    *   
       3301 ACTCTTAAAACTACAGTTTCCTCTGAATCGAAGCTAGTTTTTGA
        131 ACTCTTAAAACTACAGTTTCCTCTGAATCGAAGCTAGTTTCTGA

                      *                                                      
       3345 CCCCATGCCACATTTTGGTCCAGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAA
          1 CCCCATGCCATATTTTGGTCCAGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAA

              *   *            *         *                             *     
       3410 AGACTCGTTCAAGCA-TGATTTTTTCTCAGAGGACAACTGCCTCTCCAAATGCA-AGAAGAGGTT
         66 AGGCTCATTCAAGCACT-AGTTTTTCTCATAGGACAACTGCCTCTCCAAATGCACA-AAAAGGTT

                                           *   *          
       3473 CCACTCTTAAAACTACAGTTTCCTCTGAATCAAAGGTAGTTTCTGA
        129 CCACTCTTAAAACTACAGTTTCCTCTGAATCGAAGCTAGTTTCTGA

                           *           *    *                  **            
       3519 CCCCATGCCATATTTAGGTCCAGGAAACAGTGGTTCTGATGAAGATCTTCCGGAAACAAGTTCAA
          1 CCCCATGCCATATTTTGGTCCAGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAA

                             *                  *       *   *     *   *  *   
       3584 AGGCTCATTCAAGCACTGGTTTTTCTCATAAGAGAAAAGACT-CTTCTTCAAATTCACGAAGAGG
         66 AGGCTCATTCAAGCACTAGTTTTTCTCAT-AG-G-ACA-ACTGCCTCTCCAAATGCACAAAAAGG

                                 *    
       3648 TTCCACTCTTAAAACTACAGTGTCCT
        127 TTCCACTCTTAAAACTACAGTTTCCT

       3674 TTGAGCCAGC


Statistics
Matches: 444,  Mismatches: 51, Indels: 13
        0.87            0.10        0.03

Matches are distributed among these distances:
 173    1  0.00
 174  392  0.88
 175    3  0.01
 176    1  0.00
 177   44  0.10
 178    3  0.01

ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29


Consensus pattern (174 bp):   
CCCCATGCCATATTTTGGTCCAGGAAATAGTGATTCTGATGAAGATCTTCCTAAAACAAGTTCAA
AGGCTCATTCAAGCACTAGTTTTTCTCATAGGACAACTGCCTCTCCAAATGCACAAAAAGGTTCC
ACTCTTAAAACTACAGTTTCCTCTGAATCGAAGCTAGTTTCTGA
Done.