Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: MAG.C2.12_contig_317

Parameters: 2 5 7 80 10 50 2000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 2000

Length: 3474
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24


Found at i:3081 original size:264 final size:264

Alignment explanation


    Indices: 2609--3105  Score: 607
    Period size: 264  Copynumber: 1.9  Consensus size: 264

       2599 AAAGAGCAGG

                   *                *      *    *        *  *                
       2609 CTCGATGGTGGTGCCGATCCTGGCTGGCGGTTTCGTTGGAGCAGGCACGGCGCTCCTGCTGGCGC
          1 CTCGATGCTGGTGCCGATCCTGGCGGGCGGTATCGTCGGAGCAGGAACAGCGCTCCTGCTGGCGC

                                                *      *    *   ****       * 
       2674 CGAAACCGGGAATAAGGGTCAGGAAAGACCTGAAGAGGATCGCCAATATCACTCGGGACCAGGTC
         66 CGAAACCGGGAATAAGGGTCAGGAAAGACCTGAAGACGATCGCAAATAGCACGAAAGACCAGGCC

                          *     * **                 *        *   *       ** 
       2739 TCAGAAGCAGTAGATAAGGGCAGGGAGATCTACGAAGAAAGCAGAACAGCTGTCGCCAACGCCGT
        131 TCAGAAGCAGTAGAAAAGGGAAAAGAGATCTACGAAGAAAGAAGAACAGCCGTCACCAACGCACT

                 *                **                                         
       2804 GGAAGCAGGCAAGAAGACGTACGTCGAAGGGATAGAGAGGTTCGAAAAGTTAACGAAAAAAGATG
        196 GGAAGAAGGCAAGAAGACGTACACCGAAGGGATAGAGAGGTTCGAAAAGTTAACGAAAAAAGATG

                
       2869 AACC
        261 AACC

                      *       *                       *    *                 
       2873 CTCGATGCTGTTGCCGATTCTGGCGGGCGGTATCGTCGGAGCTGGAATAGCGCTCCTGCTGGCGC
          1 CTCGATGCTGGTGCCGATCCTGGCGGGCGGTATCGTCGGAGCAGGAACAGCGCTCCTGCTGGCGC

                                                     *   **              *   
       2938 CGAAACCGGGAATAAGGGTCAGGAAAGACCTGAA-ACGACTTGCAGCTAGCACGAAAGACCGGGC
         66 CGAAACCGGGAATAAGGGTCAGGAAAGACCTGAAGACGA-TCGCAAATAGCACGAAAGACCAGGC

            *  ****  *  *             ***    * *    *             *    *     
       3002 TTCCTCGGCCGTTGAAAAGGGAAAAGTTCTCTATGGAGAAGGAAGAACAGCCGTGACCAGCGCAC
        130 CTCAGAAGCAGTAGAAAAGGGAAAAGAGATCTACGAAGAAAGAAGAACAGCCGTCACCAACGCAC

                   *         **            *       
       3067 TGGAAGAGGGCAAGAAGGTGTACACCGAAGGTATAGAGA
        195 TGGAAGAAGGCAAGAAGACGTACACCGAAGGGATAGAGA

       3106 AGCTCCGGCA


Statistics
Matches: 179,  Mismatches: 53, Indels: 2
        0.76            0.23        0.01

Matches are distributed among these distances:
 263    3  0.02
 264  176  0.98

ACGTcount: A:0.29, C:0.22, G:0.33, T:0.15


Consensus pattern (264 bp):   
CTCGATGCTGGTGCCGATCCTGGCGGGCGGTATCGTCGGAGCAGGAACAGCGCTCCTGCTGGCGC
CGAAACCGGGAATAAGGGTCAGGAAAGACCTGAAGACGATCGCAAATAGCACGAAAGACCAGGCC
TCAGAAGCAGTAGAAAAGGGAAAAGAGATCTACGAAGAAAGAAGAACAGCCGTCACCAACGCACT
GGAAGAAGGCAAGAAGACGTACACCGAAGGGATAGAGAGGTTCGAAAAGTTAACGAAAAAAGATG
AACC
Done.