Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4669

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, 301

Length: 503
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34


Found at i:238 original size:132 final size:133

Alignment explanation


    Indices: 1--481  Score: 542
    Period size: 132  Copynumber: 3.6  Consensus size: 133

                  *   *       *     *     *                             *   *
          1 CTTAGGTTGATAGAATCTTCAATCCTCAACGTACTCCACTA-TTGCTTAGGGTGATAGGTTTAAA
          1 CTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTT-CTTAGGGTGATAGGTATAAT

                                              *                              
         65 GGCTTAAATCTGCTTCTCCACTGTATTGGGAA-GTTAAGATTCACCATCTTCGATCTGCTCCACT
         65 GGCTTAAATCTGCTTCTCCACTGTATTGGGAATGATAAGATTCACCATCTTCGATCTGCTCCACT

                
        129 ACTT
        130 ACTT

                        *  *                      *                   *      
        133 CTTAGGGTGACAAAAGCTGCAATCTTCAACCTACTCCAGTACTTCTTAGGGTGATAGGAATAATG
          1 CTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGTGATAGGTATAATG

                    *     *    *                       *   *                 
        198 GCTTAAATTTGCTTATCCATTGTATTGGGAATG-TAAGATTCATCATATTCGATCTGCTCCACTA
         66 GCTTAAATCTGCTTCTCCACTGTATTGGGAATGATAAGATTCACCATCTTCGATCTGCTCCACTA

                
        262 CTGT
        131 CT-T

                *              **              *       *       *     * *     
        266 -TTAAGGTGACAGAATCTGTTATCTTCAACCTACTACACTACTGCTTAGGGAGATAGTTCTAATG
          1 CTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGTGATAGGTATAATG

                             *   *                                  *   *    
        330 GCTTAAATCTGCTTCTCTACTCTATTGGG-ATGATAAGATTCACCATCTTCGATCTACTCTACTA
         66 GCTTAAATCTGCTTCTCCACTGTATTGGGAATGATAAGATTCACCATCTTCGATCTGCTCCACTA

              *
        394 CTG
        131 CTT

                                      *  *             * *     *   *         
        397 CTTAGGGTGACAGAATCTGCAATCTTAAAGCTACTCCACTACTGCATAGGGAGATTGG-ACTAAT
          1 CTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGTGATAGGTA-TAAT

            **    *              
        461 TACTTACATCTGCTTCTCCAC
         65 GGCTTAAATCTGCTTCTCCAC

        482 AATCTTGAAA


Statistics
Matches: 291,  Mismatches: 52, Indels: 12
        0.82            0.15        0.03

Matches are distributed among these distances:
 131    3  0.01
 132  284  0.98
 133    4  0.01

ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34


Consensus pattern (133 bp):   
CTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGTGATAGGTATAATG
GCTTAAATCTGCTTCTCCACTGTATTGGGAATGATAAGATTCACCATCTTCGATCTGCTCCACTA
CTT

Done.