Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4316

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, 330

Length: 550
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31


Found at i:261 original size:43 final size:43

Alignment explanation


    Indices: 209--491  Score: 308
    Period size: 43  Copynumber: 6.6  Consensus size: 43

        199 TTATGTGAAA

                           *                     *     
        209 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
          1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC

                             *                *         
        252 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGTTTTTA-TCAC
          1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCG-CTTTAGTCAC

                             *                     *   
        295 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGCCAC
          1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC

               *             *   *                      
        338 AAATGCCGCTAAAGATCGTGATCTTTAGCGGCGCTTTAGAT-AC
          1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAG-TCAC

                 *           *   *      * *        *   
        381 AAACGTCGCTAAAGATCGTGAGCTTTAGTGACGCTTTAGCCAC
          1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC

                                *          *            *
        424 AAACGCCGCTAAAGAGT-A-AACCTTTAGCGACGCTTCTAG-CAA
          1 AAACGCCGCTAAAGA-TCATGACCTTTAGCGGCGCTT-TAGTCAC

                           *   *       
        466 AAACGCCGCTAAA-AACATAACCTTTA
          1 AAACGCCGCTAAAGATCATGACCTTTA

        492 AAAAAATATT


Statistics
Matches: 209,  Mismatches: 23, Indels: 17
        0.84            0.09        0.07

Matches are distributed among these distances:
  41    2  0.01
  42   41  0.20
  43  162  0.78
  44    4  0.02

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


Consensus pattern (43 bp):   
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC

Done.