Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: evm.model.Ga03G0082

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: 4503
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30


Found at i:2885 original size:210 final size:210

Alignment explanation


    Indices: 2523--3432  Score: 1613
    Period size: 210  Copynumber: 4.3  Consensus size: 210

       2513 CAATCATTTT

                             *                                               
       2523 CATTCCAGATTTGGAAGAATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCCACGAACTGG
          1 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCCACGAACTGG

                                                                             
       2588 AAACTATTCCGATAAGAGAAAGATGTTCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA
         66 AAACTATTCCGATAAGAGAAAGATGTTCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA

                                                          *                  
       2653 TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGCATTAAAGCTAAGTGATTG
        131 TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGATTG

                  *        
       2718 TGCTAAGTTAAGTTC
        196 TGCTAATTTAAGTTC

                                                                   *         
       2733 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCAACGAACTGG
          1 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCCACGAACTGG

                 *            *                *         * *                 
       2798 AAACTGTTCCGATAAGAGGAAGATGTTCATCTCTTCAAAAGCTTCGCATTTCCTCGTGTCCAAAA
         66 AAACTATTCCGATAAGAGAAAGATGTTCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA

                       *                                              *      
       2863 TTAAGCAAGATTGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAATGATTG
        131 TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGATTG

                *          
       2928 TGCTGATTTAAGTTC
        196 TGCTAATTTAAGTTC

                                                           *  *   *          
       2943 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATTAGGCTGTCACGAACTGG
          1 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCCACGAACTGG

                *             *        *                                     
       3008 AAACCATTCCGATAAGAGGAAGATGTTTATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA
         66 AAACTATTCCGATAAGAGAAAGATGTTCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA

                                                                             
       3073 TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGATTG
        131 TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGATTG

                           
       3138 TGCTAATTTAAGTTC
        196 TGCTAATTTAAGTTC

                *                                          *                 
       3153 CATTTCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATTAGACTGCCACGAACTGG
          1 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCCACGAACTGG

                *                                                            
       3218 AAACCATTCCGATAAGAGAAAGATGTTCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA
         66 AAACTATTCCGATAAGAGAAAGATGTTCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA

                                                                         *   
       3283 TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGGTTG
        131 TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGATTG

                           
       3348 TGCTAATTTAAGTTC
        196 TGCTAATTTAAGTTC

                                              *                              
       3363 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAGTTTTAGATATATCAGACTGCCACGAACTGG
          1 CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCCACGAACTGG

                 
       3428 AAACT
         66 AAACT

       3433 CTTCACGTTT


Statistics
Matches: 665,  Mismatches: 35, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
 210  665  1.00

ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32


Consensus pattern (210 bp):   
CATTCCAGATTTGGAAGGATTTTCCTCTCTCCGAATTTTAGATATATCAGACTGCCACGAACTGG
AAACTATTCCGATAAGAGAAAGATGTTCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAA
TTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGATTG
TGCTAATTTAAGTTC

Found at i:3549 original size:174 final size:174

Alignment explanation


    Indices: 3259--3606  Score: 543
    Period size: 174  Copynumber: 2.0  Consensus size: 174

       3249 TCTTGAAAAG

                                                                             
       3259 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT
          1 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT

             *                ***    *                          *     *      
       3324 TGAAGAATTAAAGCTAAGTGGTTGTGCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCT
         66 TAAAGAATTAAAGCTAAGCAATTGTCCTAATTTAAGTTCCATTCCAGATTTGAAAGGAGTTTCCT

                    *                       *           
       3389 CTCTCCGAGTTTTAGATATATCAGACTGCCACGAACTGGAAACT
        131 CTCTCCGAATTTTAGATATATCAGACTGCCACAAACTGGAAACT

                                                                        *  * 
       3433 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTTGTTT
          1 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT

                     *   *                    *   *                          
       3498 TAAAGAATTGAAGTTAAGCAATTGTCCTAATTTACGTTTCATTCCAGATTTGAAAGGAGTTTCCT
         66 TAAAGAATTAAAGCTAAGCAATTGTCCTAATTTAAGTTCCATTCCAGATTTGAAAGGAGTTTCCT

                *         *                             
       3563 CTCTTCGAATTTTATATATATCAGACTGCCACAAACTGGAAACT
        131 CTCTCCGAATTTTAGATATATCAGACTGCCACAAACTGGAAACT

       3607 GTTCCGATAA


Statistics
Matches: 157,  Mismatches: 17, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
 174  157  1.00

ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33


Consensus pattern (174 bp):   
CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT
TAAAGAATTAAAGCTAAGCAATTGTCCTAATTTAAGTTCCATTCCAGATTTGAAAGGAGTTTCCT
CTCTCCGAATTTTAGATATATCAGACTGCCACAAACTGGAAACT

Found at i:3767 original size:384 final size:384

Alignment explanation


    Indices: 3049--3776  Score: 1030
    Period size: 384  Copynumber: 1.9  Consensus size: 384

       3039 TCTTGAAAAG

                                                                             
       3049 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT
          1 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT

             *                **     *                 *        *     *      
       3114 TGAAGAATTAAAGCTAAGTGATTGTGCTAATTTAAGTTCCATTTCAGATTTGGAAGGATTTTCCT
         66 TAAAGAATTAAAGCTAAGCAATTGTCCTAATTTAAGTTCCATTCCAGATTTGAAAGGAGTTTCCT

                                 *          *                                
       3179 CTCTCCGAATTTTAGATATATTAGACTGCCACGAACTGGAAACCATTCCGATAAGAGAAAGATGT
        131 CTCTCCGAATTTTAGATATATCAGACTGCCACAAACTGGAAACCATTCCGATAAGAGAAAGATGT

                                 *                                   *       
       3244 TCATCTCTTGAAAAGCTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTC
        196 TCATCTCTTGAAAAGCTTCACATTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACGGGTTGTC

                *         * *               ****         *    *              
       3309 TACCTCCACTAGTCTTGAAGAATTAAAGCTAAGTGGTTGTGCTAATTTAAGTTCCATTCCAGATT
        261 TACCGCCACTAGTCCTCAAGAATTAAAGCTAACCCATTGTGCTAACTTAAATTCCATTCCAGATT

             **                                                        
       3374 TGGAAGGATTTTCCTCTCTCCGAGTTTTAGATATATCAGACTGCCACGAACTGGAAACT
        326 TAAAAGGATTTTCCTCTCTCCGAGTTTTAGATATATCAGACTGCCACGAACTGGAAACT

                                                                        *  * 
       3433 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTTGTTT
          1 CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT

                     *   *                    *   *                          
       3498 TAAAGAATTGAAGTTAAGCAATTGTCCTAATTTACGTTTCATTCCAGATTTGAAAGGAGTTTCCT
         66 TAAAGAATTAAAGCTAAGCAATTGTCCTAATTTAAGTTCCATTCCAGATTTGAAAGGAGTTTCCT

                *         *                            **            *       
       3563 CTCTTCGAATTTTATATATATCAGACTGCCACAAACTGGAAACTGTTCCGATAAGAGGAAGATGT
        131 CTCTCCGAATTTTAGATATATCAGACTGCCACAAACTGGAAACCATTCCGATAAGAGAAAGATGT

                        *       *                *           *               
       3628 GT-ATCTCTTGAGAAGCTTCTCATTTCC-CGGTGTCCTAAATTAAGCAATATAGGAGACGGGTTG
        196 -TCATCTCTTGAAAAGCTTCACATTTCCTC-GTGTCCAAAATTAAGCAAGATAGGAGACGGGTTG

                        *           *         *         *                    
       3691 TCTACCGCCACTTG-CCTCAAGGAGTTAAAGCTATCCCATTGTGGTAACTTAAATTCCATTCCAG
        259 TCTACCGCCACTAGTCCTCAA-GAATTAAAGCTAACCCATTGTGCTAACTTAAATTCCATTCCAG

            *                     
       3755 TTTTAAAAGGATTTTCCTCTCT
        323 ATTTAAAAGGATTTTCCTCTCT

       3777 TCATAATTTA


Statistics
Matches: 299,  Mismatches: 42, Indels: 6
        0.86            0.12        0.02

Matches are distributed among these distances:
 383    5  0.02
 384  293  0.98
 385    1  0.00

ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33


Consensus pattern (384 bp):   
CTTCACGTTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACTGGTTGTCTACCTCCACTAGTCT
TAAAGAATTAAAGCTAAGCAATTGTCCTAATTTAAGTTCCATTCCAGATTTGAAAGGAGTTTCCT
CTCTCCGAATTTTAGATATATCAGACTGCCACAAACTGGAAACCATTCCGATAAGAGAAAGATGT
TCATCTCTTGAAAAGCTTCACATTTCCTCGTGTCCAAAATTAAGCAAGATAGGAGACGGGTTGTC
TACCGCCACTAGTCCTCAAGAATTAAAGCTAACCCATTGTGCTAACTTAAATTCCATTCCAGATT
TAAAAGGATTTTCCTCTCTCCGAGTTTTAGATATATCAGACTGCCACGAACTGGAAACT

Done.