Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00128.N4

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: 2254
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35


Found at i:406 original size:147 final size:147

Alignment explanation


    Indices: 139--469  Score: 565
    Period size: 147  Copynumber: 2.3  Consensus size: 147

        129 TATACAGGGC

                                                                             
        139 CTTGTTAATTTAAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTC
          1 CTTGTTAATTTAAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTC

                                                            *                
        204 AAAAGCCATCAACCTTAAAGTCCTTGATTGCTCTAACTGCAAAAGTTTGGTTGAACTTTGGAATG
         66 AAAAGCCATCAACCTTAAAGTCCTTGATTGCTCTAACTGCAAAAGTTTAGTTGAACTTTGGAATG

                           * 
        269 AAGATGATCATATGGGA
        131 AAGATGATCATATGGCA

                                                                             
        286 CTTGTTAATTTAAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTC
          1 CTTGTTAATTTAAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTC

                            *                                                
        351 AAAAGCCATCAACCTTGAAGTCCTTGATTGCTCTAACTGCAAAAGTTTAGTTGAACTTTGGAATG
         66 AAAAGCCATCAACCTTAAAGTCCTTGATTGCTCTAACTGCAAAAGTTTAGTTGAACTTTGGAATG

                          * *
        416 AAGATGATCATATGTCC
        131 AAGATGATCATATGGCA

                       *          *   *  *        
        433 CTTGTTAAGTTAAAGG-AAATTCGCTGTGGTGGGTGCG
          1 CTTGTTAA-TTTAAGGCAAATTTGCTTTGCTGGGTGCG

        470 AGTCTCTTGT


Statistics
Matches: 174,  Mismatches: 9, Indels: 2
        0.94            0.05        0.01

Matches are distributed among these distances:
 147  168  0.97
 148    6  0.03

ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34


Consensus pattern (147 bp):   
CTTGTTAATTTAAGGCAAATTTGCTTTGCTGGGTGCGTGAATTTAAGGAAGATACCTAATTTTTC
AAAAGCCATCAACCTTAAAGTCCTTGATTGCTCTAACTGCAAAAGTTTAGTTGAACTTTGGAATG
AAGATGATCATATGGCA

Found at i:1959 original size:20 final size:21

Alignment explanation


    Indices: 1923--1974  Score: 56
    Period size: 20  Copynumber: 2.6  Consensus size: 21

       1913 TTTCATCTCA

                                 
       1923 ATTTTTC-ATATTATCATAT-
          1 ATTTTTCAATATTATCATATC

                      *  *    *  
       1942 ATTTTTCAATTTTTTCATTTC
          1 ATTTTTCAATATTATCATATC

                         
       1963 ATTTTTC-ATATT
          1 ATTTTTCAATATT

       1975 GCCATAGTTT


Statistics
Matches: 27,  Mismatches: 4, Indels: 3
        0.79            0.12        0.09

Matches are distributed among these distances:
  19    7  0.26
  20   13  0.48
  21    7  0.26

ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63


Consensus pattern (21 bp):   
ATTTTTCAATATTATCATATC
Done.