Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3958

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, 370

Length: 618
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27


Found at i:245 original size:132 final size:132

Alignment explanation


    Indices: 4--618  Score: 826
    Period size: 132  Copynumber: 4.7  Consensus size: 132

          1 TTG

                                     *             *   *                     
          4 CAGTGGAGTACATTGAAGCCAGA-ATTTCTACTTCCCTGAGCATCAGTGGAATAGATTGAAGATT
          1 CAGTGGAGTACATTGAAGCCA-ATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATT

                      *    *             *          *      *                 
         68 TCAGATCTTGTCTCCTTAAGCAGTAGTGGGGCAGATCAAATATGGCGGATTTTACCT-CCTCGTG
         65 TCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCCT-GTG

                
        132 GTTA
        129 GTTA

                                                  *       *                 *
        136 CAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGAGCAGCAGCGGAATAGATTGAAGATTG
          1 CAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTT

            *     *           *  **  *     *                              * *
        201 AAGATCCTGCCTCCCTAAACAACAGCGGAGCGGATCAAAGATGGCGAATTTTACCTCCCTGTAGC
         66 CAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCCTGTGGT

              
        266 TA
        131 TA

                                 *                        **                 
        268 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCAGAATAGATTGAAGATTT
          1 CAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTT

               *            *                *                               
        333 CAGGTCTTGCCTCCCTTAGCAGTAGTGGAGCAGGTCAAAGATGGC-AGATTTTACCTCCCTGTGG
         66 CAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGA-ATTTTACCTCCCTGTGG

               
        397 TTA
        130 TTA

                               *                                             
        400 CAGTGGAGTACATTGAAGCTAGA-AATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
          1 CAGTGGAGTACATTGAAGCCA-ATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATT

                      *                                  *                *  
        464 TCAGATCTTGACTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGAGG
         65 TCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCCTGTGG

              *
        529 TTG
        130 TTA

                      *                               *   *                  
        532 CAGTGGAGTATATTGAAGCCAATAATTCTA-TCTCCCTGGGCGGCAATGGAATAGATTGAAGATT
          1 CAGTGGAGTACATTGAAGCCAATAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT

            *     *                
        596 ACAGATTTTGCCTCCCTAAGCAG
         65 TCAGATCTTGCCTCCCTAAGCAG


Statistics
Matches: 424,  Mismatches: 52, Indels: 14
        0.87            0.11        0.03

Matches are distributed among these distances:
 131    4  0.01
 132  416  0.98
 133    4  0.01

ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27


Consensus pattern (132 bp):   
CAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTT
CAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCCCTGTGGT
TA

Done.