Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00326.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, 1000

Length: 1983
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37


Found at i:794 original size:48 final size:48

Alignment explanation


    Indices: 723--1138  Score: 575
    Period size: 48  Copynumber: 8.7  Consensus size: 48

        713 TCGACGGAAA

                             *                *             
        723 TTCGGGCCATGATATTATCACTTCGGGTGCGAGTCATATTGATTTGGC
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

                                        *       *   *       
        771 TTCGGGCCATGATATTAGCACTTCGGGTACGAGTTAAATTAATTTGGC
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

                                          *   *  *        * 
        819 TTCGGGCCATGATATTAGCACTTCGGGTGCAAGTCATGTTGATTTGAC
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

                             **    *                        
        867 TTC-GGCCATGATATTATTACTTTGGGTGCGAGTTATATTGATTTGGC
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

                                                         *  
        914 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTAGC
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

                                   *          *             
        962 TTCGGGCCATGATATTAGCACTTTGGGTGCGAGTCATATTGATTTGGC
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

               *                                 *          
       1010 TTCTGGCCATGATATTAGCACTTCGGGTGCGAGTTATGTTGATTTGGC
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

                                              *  *   * *    *
       1058 TTCGGGCCATGATATTAGCACTT-GGAGTGCGAGATACATTAAGTTGGT
          1 TTCGGGCCATGATATTAGCACTTCGG-GTGCGAGTTATATTGATTTGGC

                           **      *  *      
       1106 TTCGGGCCATGATATGGGCACTTAGGATGCGAG
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAG

       1139 ACTCCCGAAT


Statistics
Matches: 325,  Mismatches: 40, Indels: 6
        0.88            0.11        0.02

Matches are distributed among these distances:
  47   42  0.13
  48  281  0.86
  49    2  0.01

ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35


Consensus pattern (48 bp):   
TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTGGC

Found at i:976 original size:24 final size:24

Alignment explanation


    Indices: 901--977  Score: 61
    Period size: 24  Copynumber: 3.2  Consensus size: 24

        891 GGTGCGAGTT

                      *             
        901 ATATTGATTTGGCTTCGGGCCATG
          1 ATATTGATTTAGCTTCGGGCCATG

                    **            *   *
        925 ATATT-A-GCA-CTTCGGGTGCGAGTT
          1 ATATTGATTTAGCTTC-GG-GCCA-TG

                                    
        949 ATATTGATTTAGCTTCGGGCCATG
          1 ATATTGATTTAGCTTCGGGCCATG

                 
        973 ATATT
          1 ATATT

        978 AGCACTTTGG


Statistics
Matches: 38,  Mismatches: 9, Indels: 12
        0.64            0.15        0.20

Matches are distributed among these distances:
  21    4  0.11
  22    2  0.05
  23    4  0.11
  24   17  0.45
  25    4  0.11
  26    3  0.08
  27    4  0.11

ACGTcount: A:0.21, C:0.16, G:0.26, T:0.38


Consensus pattern (24 bp):   
ATATTGATTTAGCTTCGGGCCATG

Found at i:1051 original size:191 final size:192

Alignment explanation


    Indices: 723--1138  Score: 602
    Period size: 191  Copynumber: 2.2  Consensus size: 192

        713 TCGACGGAAA

                             *                           *                   
        723 TTCGGGCCATGATATTATCACTTCGGGTGCGAGTCATATTGATTTGGCTTCGGGCCATGATATTA
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTCATATTGATTTAGCTTCGGGCCATGATATTA

                             *                                               
        788 GCACTTCGGGTACGAGTTAAATTAATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCAAGT
         66 GCACTTCGGGTACGAGTCAAATTAATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCAAGT

                                           **               *  *   * *     
        853 CATGTTGATTTGACTTC-GGCCATGATATTATTACTTTGG-GTGCGAGTTATATTGATTTGGC
        131 CATGTTGATTTGACTTCGGGCCATGATATTAGCAC-TTGGAGTGCGAGATACATTAAGTTGGC

                                              *                              
        914 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATATTGATTTAGCTTCGGGCCATGATATTA
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTCATATTGATTTAGCTTCGGGCCATGATATTA

                  *    *       *   *          *                          *   
        979 GCACTTTGGGTGCGAGTCATATTGATTTGGCTTCTGGCCATGATATTAGCACTTCGGGTGCGAGT
         66 GCACTTCGGGTACGAGTCAAATTAATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCAAGT

            *           *                                                *
       1044 TATGTTGATTTGGCTTCGGGCCATGATATTAGCACTTGGAGTGCGAGATACATTAAGTTGGT
        131 CATGTTGATTTGACTTCGGGCCATGATATTAGCACTTGGAGTGCGAGATACATTAAGTTGGC

                           **      *  *      
       1106 TTCGGGCCATGATATGGGCACTTAGGATGCGAG
          1 TTCGGGCCATGATATTAGCACTTCGGGTGCGAG

       1139 ACTCCCGAAT


Statistics
Matches: 200,  Mismatches: 23, Indels: 3
        0.88            0.10        0.01

Matches are distributed among these distances:
 191  139  0.69
 192   61  0.31

ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35


Consensus pattern (192 bp):   
TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTCATATTGATTTAGCTTCGGGCCATGATATTA
GCACTTCGGGTACGAGTCAAATTAATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCAAGT
CATGTTGATTTGACTTCGGGCCATGATATTAGCACTTGGAGTGCGAGATACATTAAGTTGGC

Done.