Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00126.F4

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: 4507
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31


Found at i:12 original size:3 final size:3

Alignment explanation


    Indices: 5--36  Score: 55
    Period size: 3  Copynumber: 10.7  Consensus size: 3

          1 ATGG

                                             *        
          5 CTT CTT CTT CTT CTT CTT CTT CTT CAT CTT CT
          1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT

         37 ACTCTAATGA


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   3   27  1.00

ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62


Consensus pattern (3 bp):   
CTT

Found at i:2775 original size:146 final size:146

Alignment explanation


    Indices: 2467--2753  Score: 369
    Period size: 147  Copynumber: 2.0  Consensus size: 146

       2457 GGGCCTTGTT

                    *      * *    * *                       *                
       2467 AATTTAAGGAAAATTAACTTTGGGGGGTGCGTGAATTTAAGGAAGATATCTAATCTTTCAAGAGC
          1 AATTTAAGAAAAATTTATTTTGAGCGGTGCGTGAATTTAAGGAAGATACCTAATCTTTCAAGAGC

                      *         *  *    *            ***                     
       2532 CATCAACCTTGAAATCCTTGTTTTCACTGACTGCGAAAGTTTGGTTGAACTTTGGAATGAAGATG
         66 CATCAACCTTAAAATCCTTGATTGCACTAACTGCGAAAGTTCAATTGAACTTTGGAATGAAGATG

                     **     *
       2597 ATCATATGGGCCTTGTT
        131 ATCATATGGAAC-TGTA

                    **                                                      *
       2614 AATTTAAGGGAAATTTATTTTGAGCGGTGCGTGAATTTAAGGAAGATACCTAATCTTTCAAGAGT
          1 AATTTAAGAAAAATTTATTTTGAGCGGTGCGTGAATTTAAGGAAGATACCTAATCTTTCAAGAGC

                                     **                                      
       2679 CATC-ACCTTAAAATCCTTGATTGCTTTAACTGCGAAAGTTCAATTGAACTTTGGAATGAAGATG
         66 CATCAACCTTAAAATCCTTGATTGCACTAACTGCGAAAGTTCAATTGAACTTTGGAATGAAGATG

                       
       2743 ATCATATGGAA
        131 ATCATATGGAA

       2754 ACGAAATTTT


Statistics
Matches: 122,  Mismatches: 18, Indels: 1
        0.87            0.13        0.01

Matches are distributed among these distances:
 146   60  0.49
 147   62  0.51

ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33


Consensus pattern (146 bp):   
AATTTAAGAAAAATTTATTTTGAGCGGTGCGTGAATTTAAGGAAGATACCTAATCTTTCAAGAGC
CATCAACCTTAAAATCCTTGATTGCACTAACTGCGAAAGTTCAATTGAACTTTGGAATGAAGATG
ATCATATGGAACTGTA
Done.