Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1610

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, 889

Length: 1482
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25


Found at i:554 original size:304 final size:304

Alignment explanation


    Indices: 1--1482  Score: 2268
    Period size: 304  Copynumber: 4.9  Consensus size: 304

                         *                  *        *           *           
          1 CCCAGGAGGTCACTCATCCTAGTACTACTCTCGCCCAAGCATGCTTAACTACGACGTTTTGATAG
          1 CCCAGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGCTTAACTACGGCGTTTTGATAG

                                                                 *           
         66 GATCCGGTGCATTAGTGCTGGTATGATCTCACCCGTCAACTCTTGCGCAATCTGTTCATATAAAG
         66 GATCCGGTGCATTAGTGCTGGTATGATCTCACCCGTCAACTCTTGCGCAATCTATTCATATAAAG

              *           * *                                          *     
        131 GCAGCCCCTTATCGGAGTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTGAAATT
        131 GCTGCCCCTTATCGCACTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTCAAATT

                             *                      *               *   *    
        196 ATTTATTTCGCAAAACGAAAATAACGAATGAGTTACACCATGTGGAGAAAATGCAATTAATAAAA
        196 ATTTATTTCGCAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAATGCAACTAACAAAA

                   *                                    
        261 AACATTATATGAAATAAAGTGGGAGGGGTGCAACACGAGGACTT
        261 AACATTAAATGAAATAAAGTGGGAGGGGTGCAACACGAGGACTT

             *          *         *         *                              * 
        305 CGCAGGAGGTCATCCATCCTAGGACTACTCTCGCCCAAGCACGCTTAACTACGGCGTTTTGATCG
          1 CCCAGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGCTTAACTACGGCGTTTTGATAG

                          *     *                               *           *
        370 GATCCGGTGCATTACTGCTGATATGATCGT-ACCCGTCAACTCTTGCGCAATGTATTCATATAAG
         66 GATCCGGTGCATTAGTGCTGGTATGATC-TCACCCGTCAACTCTTGCGCAATCTATTCATATAAA

                *          *    *                                            
        434 GGCTACCCCTTATCGAACTTTCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTCAAAT
        130 GGCTGCCCCTTATCGCACTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTCAAAT

              *       *                                                      
        499 TAATTATTTCACAAAACGCAAATAACGAATGAGTTACACCACGTGGA-ATAAATGCAACTAACAA
        195 TATTTATTTCGCAAAACGCAAATAACGAATGAGTTACACCACGTGGAGA-AAATGCAACTAACAA

                  *                      *                
        563 AAAACACTAAATGAAATAAAGTGGGAGGGATGCAACACGAGGACTT
        259 AAAACATTAAATGAAATAAAGTGGGAGGGGTGCAACACGAGGACTT

                                     *       *                               
        609 CCCAGGAGGTCACCCATCCTAGTACCACTCTCAACCAAGCACGCTTAACTACGGCGTTTTGATAG
          1 CCCAGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGCTTAACTACGGCGTTTTGATAG

                           *  *       *                                      
        674 GATCCGGTGCATTAGAGCAGGTATGACCTCACCCGTCAACTCTTGCGCAATCTATTCATATAAAG
         66 GATCCGGTGCATTAGTGCTGGTATGATCTCACCCGTCAACTCTTGCGCAATCTATTCATATAAAG

                       *    *                     **                         
        739 GCTGCCCCTTACCGCAGTTGCGCCTCGAATTTTAATGCCTATTCGACCAAATATCGTTTCAAATT
        131 GCTGCCCCTTATCGCACTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTCAAATT

                             *                                 *             
        804 ATTTATTTCGCAAAACGAAAATAACGAATGAGTTACACCACGTGGAGAAAAGGCAACTAACAAAA
        196 ATTTATTTCGCAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAATGCAACTAACAAAA

                *                    *               *  
        869 AACAGTAAATGAAATAAAGTGGGAGTGGTGCAACACGAGGAGTT
        261 AACATTAAATGAAATAAAGTGGGAGGGGTGCAACACGAGGACTT

                                                                *            
        913 CCCAGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGCTTAACTACAGCGTTTTGAT-G
          1 CCCAGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGCTTAACTACGGCGTTTTGATAG

                                                                  *          
        977 GAATCCGGTGCATTAGTGCTGGTATGATCTCACCCGTCAACTCTTGCGCAATCTGTTCATATAAA
         66 G-ATCCGGTGCATTAGTGCTGGTATGATCTCACCCGTCAACTCTTGCGCAATCTATTCATATAAA

                           *                                       *  *      
       1042 GGCTGCCCCTTATCGTACTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATTGTGTCAAAT
        130 GGCTGCCCCTTATCGCACTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTCAAAT

                      **                                                     
       1107 TATTTATTTCTTAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAATGCAACTAACAAA
        195 TATTTATTTCGCAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAATGCAACTAACAAA

                   **         *                          
       1172 AAACATTGTATGAAATAATGTGGGAGGGGTGCAACACGAGGACTT
        260 AAACATTAAATGAAATAAAGTGGGAGGGGTGCAACACGAGGACTT

              *                         **              *        *         * 
       1217 CCTAGGAGGTCACCCATCCTAGTACTACAGTCACCCAAGCACGCCTAACTACGACGTTTTGATGG
          1 CCCAGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGCTTAACTACGGCGTTTTGATAG

                                      * *       *                            
       1282 GATCCGGTGCATTAGTGCTGGTATGAGCGCACCCGTGAACTCTTGCGCAATCTATTCATATAAAG
         66 GATCCGGTGCATTAGTGCTGGTATGATCTCACCCGTCAACTCTTGCGCAATCTATTCATATAAAG

                        *      *            *  *                 *         * 
       1347 GCTGCCCCTTATAGCACTTCCGCCTCGAATTTGAAGGCAAATTCGACCAAATAGCGTTTCAAAAT
        131 GCTGCCCCTTATCGCACTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTCAAATT

                 *            *            *                                 
       1412 ATTTAATTCGCAAAACGCTAATAACGAATGAATTACACCACGTGGAGAAAATGCAACTAACAAAA
        196 ATTTATTTCGCAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAATGCAACTAACAAAA

                  
       1477 AACATT
        261 AACATT


Statistics
Matches: 1068,  Mismatches: 104, Indels: 12
        0.90            0.09        0.01

Matches are distributed among these distances:
 303    4  0.00
 304  1060  0.99
 305    4  0.00

ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25


Consensus pattern (304 bp):   
CCCAGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGCTTAACTACGGCGTTTTGATAG
GATCCGGTGCATTAGTGCTGGTATGATCTCACCCGTCAACTCTTGCGCAATCTATTCATATAAAG
GCTGCCCCTTATCGCACTTGCGCCTCGAATTTTAATGCAAATTCGACCAAATATCGTTTCAAATT
ATTTATTTCGCAAAACGCAAATAACGAATGAGTTACACCACGTGGAGAAAATGCAACTAACAAAA
AACATTAAATGAAATAAAGTGGGAGGGGTGCAACACGAGGACTT

Done.