Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00272.F2

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, 711

Length: 1186
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30


Found at i:761 original size:133 final size:133

Alignment explanation


    Indices: 533--1041  Score: 759
    Period size: 133  Copynumber: 3.8  Consensus size: 133

        523 GATCTGCTGT

                          *   *         *                   *               *
        533 AATTTGATCTGCTTTACTTCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCT
          1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTA--TATAGCCTGCTCCACTCC

                *  **  *                                *                 *  
        598 TGCTTAGCAAATATAAGGCTGGTGGCTGAAATCTGCTCCATTGCTGATACATGGAGATAA-AATT
         64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT

             *    
        662 CACCAA
        129 -GCCAA

                         * *     *     *             *                       
        668 AATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTG
          1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTCCACTCCTG

              *                                     *                        
        733 CTTAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTTCCGATACATGGAGATAAGACTTGC
         66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC

               
        798 CAA
        131 CAA

                               *                          *                  
        801 AATTTGATCTGCTTCACTCTTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTG
          1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTCCACTCCTG

                                     *                                       
        866 CTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
         66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC

               
        931 CAA
        131 CAA

                              *                               *          *   
        934 AATTTGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATATAGACTGCTCCACTTCTG
          1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTCCACTCCTG

                                                       
        999 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCC
         66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCC

       1042 CACTAGGGAA


Statistics
Matches: 340,  Mismatches: 33, Indels: 4
        0.90            0.09        0.01

Matches are distributed among these distances:
 133  300  0.88
 134    3  0.01
 135   37  0.11

ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30


Consensus pattern (133 bp):   
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
CAA

Found at i:995 original size:43 final size:44

Alignment explanation


    Indices: 673--1013  Score: 157
    Period size: 43  Copynumber: 7.7  Consensus size: 44

        663 ACCAAAATTT

                      *  *  *     *             *       
        673 GATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTAGTATATA
          1 GATCTGCTCCACTTCTGCTCAGTGAAGATAAGATCTGGTATATA

              *          *     *             *     ***   
        717 G-CCTGCTCCACTCCTGCTTAGTGAAGATAAG-GCTGGTGGCTGA
          1 GATCTGCTCCACTTCTGCTCAGTGAAGATAAGATCTGGTATAT-A

            *          *   * *       *              ** *   *
        760 AATCTGCTCCATTTCCGATACA-TGGAGATAAGA-CTTGCCAAAATTT
          1 GATCTGCTCCACTTCTGCT-CAGTGAAGATAAGATC-TG-GTATA-TA

                    *                                 *  
        806 GATCTGCTTCAC-TCTTGCTCAGTGAAGATAAGATCTGGTATTTA
          1 GATCTGCTCCACTTC-TGCTCAGTGAAGATAAGATCTGGTATATA

              *          *                   *       *    
        850 G-CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTGGCTA-A
          1 GATCTGCTCCACTTCTGCTCAGTGAAGATAAGATCTGGT--ATATA

            *               * *       *              ** *   *
        893 AATCTGCTCCA-TTGCCGATACA-TGGAGATAAGA-CTTGCCAAAATTT
          1 GATCTGCTCCACTT-CTGCT-CAGTGAAGATAAGATC-TG-GTATA-TA

                    *                                   
        939 GATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATATA
          1 GATCTGCTCCACTTCTGCTCAGTGAAGATAAGATCTGGTATATA

                                            
        983 GA-CTGCTCCACTTCTGCTCAGTGAAGATAAG
          1 GATCTGCTCCACTTCTGCTCAGTGAAGATAAG

       1014 GCTGGTGGCT


Statistics
Matches: 211,  Mismatches: 62, Indels: 49
        0.66            0.19        0.15

Matches are distributed among these distances:
  42   10  0.05
  43   81  0.38
  44   52  0.25
  45   16  0.08
  46   47  0.22
  47    5  0.02

ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29


Consensus pattern (44 bp):   
GATCTGCTCCACTTCTGCTCAGTGAAGATAAGATCTGGTATATA

Done.