Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00841.F1

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: 3159
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31


Found at i:1942 original size:164 final size:166

Alignment explanation


    Indices: 1656--1980  Score: 451
    Period size: 164  Copynumber: 2.0  Consensus size: 166

       1646 TTGCTGGCTA

                                             * **                 **         
       1656 TGTTAACTTTCTCATAATTGCATTAGTGTACAAGTTTGTTGCTTGTGGGGAGTTTTTAACATAAT
          1 TGTTAAC-TTCTCATAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAAT

               *            *     *                                          
       1721 TATTTAGTTGTTGAAATTGTGACTAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTT
         65 TATGTAGTTGTTGAAAATGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTT

                         *                       
       1786 ACCAATGTATCTGGCTGAGAAATTCTCAACCGGAATC
        130 ACCAATGTATCTGACTGAGAAATTCTCAACCGGAATC

                        *                                                 *  
       1823 TGTTAAC-TCTCTTAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAG-TCATAACATGCA-
          1 TGTTAACTTCTCATAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACAT-AAT

                                                       *                *    
       1885 TATGTAGTTGTTGAAAATGCTGAAT-ATTAGGCTTTTGAAGAATATTGACTTATGTTTCTTGATT
         65 TATGTAGTTGTTGAAAATG-TGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATT

               *     *                 *    
       1949 TACTAATGTGTCTGACTGAGAAATTCTTAACC
        129 TACCAATGTATCTGACTGAGAAATTCTCAACC

       1981 AAAATGTGCT


Statistics
Matches: 140,  Mismatches: 16, Indels: 7
        0.86            0.10        0.04

Matches are distributed among these distances:
 164   89  0.64
 165   44  0.31
 167    7  0.05

ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40


Consensus pattern (166 bp):   
TGTTAACTTCTCATAATTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATT
ATGTAGTTGTTGAAAATGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTA
CCAATGTATCTGACTGAGAAATTCTCAACCGGAATC
Done.