Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g03055.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: 2076
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27


Found at i:62 original size:17 final size:16

Alignment explanation


    Indices: 37--77  Score: 57
    Period size: 17  Copynumber: 2.6  Consensus size: 16

         27 AAAGTGATAG

                            
         37 AATAGAAAAACTAAAA
          1 AATAGAAAAACTAAAA

                       *     
         53 AATAGCAAAAAGTAAAA
          1 AATAG-AAAAACTAAAA

                     
         70 AATA-AAAA
          1 AATAGAAAA

         78 TCTTATTTCT


Statistics
Matches: 23,  Mismatches: 1, Indels: 3
        0.85            0.04        0.11

Matches are distributed among these distances:
  15    4  0.17
  16    5  0.22
  17   14  0.61

ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12


Consensus pattern (16 bp):   
AATAGAAAAACTAAAA

Found at i:1097 original size:96 final size:96

Alignment explanation


    Indices: 997--1190  Score: 266
    Period size: 96  Copynumber: 2.0  Consensus size: 96

        987 CCCTCAGAGC

                            *                       *  *                   * 
        997 CAAGTTCC-TCCTGTCGCTCAAG-GAGATGCTTACTATACTCCCCCTGCCCAAACTCAGGAGATT
          1 CAAGTTCCAT-CTGTCCCTC-AGCGAGATGCTTACTATACACCACCTGCCCAAACTCAGGAGACT

                    *        *           *   
       1060 CCAAGTCAGCAATTCCCTATGCCTCCTACTCAG
         64 CCAAGTCAACAATTCCCAATGCCTCCTACACAG

                                                          *             *    
       1093 CAAGTTCCATCTGTCCCTCAGCGAGATGCTTACTATACACCACCTGGCCAAACTCAGGAGGCTCC
          1 CAAGTTCCATCTGTCCCTCAGCGAGATGCTTACTATACACCACCTGCCCAAACTCAGGAGACTCC

                     *                     
       1158 AAGTCAACACTTCCCAATGCCTCCTACACAG
         66 AAGTCAACAATTCCCAATGCCTCCTACACAG

              
       1189 CA
          1 CA

       1191 GCAACAGCCC


Statistics
Matches: 86,  Mismatches: 10, Indels: 4
        0.86            0.10        0.04

Matches are distributed among these distances:
  95    2  0.02
  96   83  0.97
  97    1  0.01

ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23


Consensus pattern (96 bp):   
CAAGTTCCATCTGTCCCTCAGCGAGATGCTTACTATACACCACCTGCCCAAACTCAGGAGACTCC
AAGTCAACAATTCCCAATGCCTCCTACACAG
Done.