Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3905

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, 377

Length: 629
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27


Found at i:257 original size:132 final size:132

Alignment explanation


    Indices: 1--558  Score: 787
    Period size: 132  Copynumber: 4.2  Consensus size: 132

                       *                    *   * *  *             *         
          1 TGTCACCCTAAACAGTAGTGGAGCAGATCGAATATGATAAAACTTATCTTCCCAAGACAGTGGAG
          1 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAG

               *                                     *                     * 
         66 AAGGAGATTTAAGCCATTAGTCCGT-TCACCCTAAGCAGTACTGGAATAGGTTGAAGATTGCACA
         66 AAGAAGATTTAAGCCATTAGTCC-TATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGA

               
        130 TTC
        130 TTC

                                                                     *      *
        133 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATATAGTGGAT
          1 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAG

               *      *                      *           *         *         
        198 AAGTAGATTTCAGCCATTAGTCCTATCACCCTACGCAGTAGTGGAGT-GGTTTGAGGATTGCAGA
         66 AAGAAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGG-TTGAAGATTGCAGA

               
        262 TTC
        130 TTC

                                                    *                        
        265 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGATTCTTATCTTCCCAATACAGTGGAG
          1 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAG

                                       *              *                      
        330 AAGAAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTCGAATAGGTTGAAGATTGCAGAT
         66 AAGAAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGAT

             *
        395 TT
        131 TC

                              *    *                                     *   
        397 TGTCACCCTAAGCAGTAGCGGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAG
          1 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAG

               *                *      *       *      *  *             **    
        462 AAGCAGATTTAAGCCATTAGACCTATCTCCCTAAGGAGTAGTAGAGTAGGTTGAAGATTATAGAT
         66 AAGAAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGAT

              
        527 TC
        131 TC

                       **                 
        529 TGTCACCCTAAATAGTAGTGGAGCAGATCG
          1 TGTCACCCTAAGCAGTAGTGGAGCAGATCG

        559 TATAGGTTGA


Statistics
Matches: 381,  Mismatches: 42, Indels: 6
        0.89            0.10        0.01

Matches are distributed among these distances:
 131    3  0.01
 132  376  0.99
 133    2  0.01

ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27


Consensus pattern (132 bp):   
TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAG
AAGAAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGAT
TC

Done.