Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g00354.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: 3078
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27


Found at i:2362 original size:207 final size:205

Alignment explanation


    Indices: 1714--2477  Score: 1024
    Period size: 204  Copynumber: 3.7  Consensus size: 205

       1704 AAATTCAGAC

                                   *                             *           
       1714 ATTGTAAATCAAGGCACTGCTCCCAGAAGAATACGCTTG-ATGAAACTTTCTAGTGGGCCAATGA
          1 ATTGTAAATCAAGGCACTGCTCCAAGAAGAATACGCTTGCATGAAACTTTCTACTGGGCCAATGA

                     *                  *  *    **            *              
       1778 AAGGTTCTGTAGGCTGTGTCGATGGTGGAAAAATGATGAG-CACTGGCCTTGTTGAAGAAGAAGA
         66 AAGGTTCTGCAGGCTGTGTCGATGGTGGGAACATGACAAGTC-CTGGCCTCGTT---GAAGAAGA

                                                        *                    
       1842 AGTTCAGTCTGCTCTAACTGAGGTCACAGAAGCTGAAGCTGCAGAACAGACTTCTAGCTCTGATG
        127 AGTTCAGTCTGCTCTAACTGAGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATG

                          
       1907 AGTCAGAGAAGAAT
        192 AGTCAGAGAAGAAT

                         *      *             *        *         *      *    
       1921 ATTGTAAATCAAGTCACTGCACCAAGAAGAATACACTTGCAAACGAAACTTTCCACTGGGGCAAT
          1 ATTGTAAATCAAGGCACTGCTCCAAGAAGAATACGCTTGC--ATGAAACTTTCTACTGGGCCAAT

                                  *                *                         
       1986 GAAAGGTTCTGCAGGCTGTGTCAATGGTGGGAACATGACTAGTCCTGGCCTCGTT---GAAGAAG
         64 GAAAGGTTCTGCAGGCTGTGTCGATGGTGGGAACATGACAAGTCCTGGCCTCGTTGAAGAAGAAG

                *        *                          *  * *            *      
       2048 TTCAATCTGCTCTTACTGAGGTCACAGAAGCTGAAGCTGCTGGGCTGACTTCTAGCTCAGATGAG
        129 TTCAGTCTGCTCTAACTGAGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAG

             *          
       2113 TTAGAGAAGAAT
        194 TCAGAGAAGAAT

                                                *       *  *           *     
       2125 ATTGTAAATCAAGGCACTGCTCCAAGAAGAATACGCCTGCAAATTAATCTTTCTACTGGACCAAT
          1 ATTGTAAATCAAGGCACTGCTCCAAGAAGAATACGCTTGC--ATGAAACTTTCTACTGGGCCAAT

                                            *                                
       2190 GAAAGGTTCTGCAGGCTGTGTCGATGGTGGGAGCATGACAAGTCCTGGCCTCGTTGAAGAAGAAG
         64 GAAAGGTTCTGCAGGCTGTGTCGATGGTGGGAACATGACAAGTCCTGGCCTCGTTGAAGAAGAAG

                            *                                                
       2255 TTCAGTCTGCTCTAACCGAGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAG
        129 TTCAGTCTGCTCTAACTGAGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAG

                   *    
       2320 TCAGAGATGAAT
        194 TCAGAGAAGAAT

                    *    *  *      *                   *                     
       2332 ATTGTAAACCAAGCCATTGCTCCTAGAAGAATACG-TT---TGCAACTTTCTACTGGGCCAATGA
          1 ATTGTAAATCAAGGCACTGCTCCAAGAAGAATACGCTTGCATGAAACTTTCTACTGGGCCAATGA

             *               *                                 * *           
       2393 ATGGTTCTGCAGGCTGTATCGATGGTGGGAACATGACAAGTCCTGGCCTCGGTAAAGAAGAAGTT
         66 AAGGTTCTGCAGGCTGTGTCGATGGTGGGAACATGACAAGTCCTGGCCTCGTTGAAGAAGAAGTT

                    *           
       2458 CAGTCTGCGCTAACTGAGGT
        131 CAGTCTGCTCTAACTGAGGT

       2478 AGAGGAACTA


Statistics
Matches: 489,  Mismatches: 61, Indels: 20
        0.86            0.11        0.04

Matches are distributed among these distances:
 201   98  0.20
 204  183  0.37
 206    1  0.00
 207  141  0.29
 210   65  0.13
 211    1  0.00

ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24


Consensus pattern (205 bp):   
ATTGTAAATCAAGGCACTGCTCCAAGAAGAATACGCTTGCATGAAACTTTCTACTGGGCCAATGA
AAGGTTCTGCAGGCTGTGTCGATGGTGGGAACATGACAAGTCCTGGCCTCGTTGAAGAAGAAGTT
CAGTCTGCTCTAACTGAGGTCACAGAAGCTGAAGCTGCAGGACAGACTTCTAGCTCTGATGAGTC
AGAGAAGAAT
Done.