Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g02479.N1

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, 815

Length: 1359
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34


Found at i:1170 original size:6 final size:6

Alignment explanation


    Indices: 1159--1191  Score: 52
    Period size: 6  Copynumber: 5.8  Consensus size: 6

       1149 ACATTCTTAT

                                                    
       1159 ATTTTG ATTTTG ATTTT- ATTTTG ATTTT- ATTTT
          1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT

       1192 CATCTTATTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
   5   10  0.38
   6   16  0.62

ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73


Consensus pattern (6 bp):   
ATTTTG

Found at i:1180 original size:17 final size:16

Alignment explanation


    Indices: 1158--1191  Score: 59
    Period size: 17  Copynumber: 2.1  Consensus size: 16

       1148 AACATTCTTA

                             
       1158 TATTTTGATTTTGATTT
          1 TATTTTGATTTT-ATTT

                            
       1175 TATTTTGATTTTATTT
          1 TATTTTGATTTTATTT

             
       1191 T
          1 T

       1192 CATCTTATTT


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  16    5  0.29
  17   12  0.71

ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74


Consensus pattern (16 bp):   
TATTTTGATTTTATTT

Found at i:1181 original size:11 final size:11

Alignment explanation


    Indices: 1159--1201  Score: 59
    Period size: 11  Copynumber: 3.8  Consensus size: 11

       1149 ACATTCTTAT

                        
       1159 ATTTTGATTTTG
          1 ATTTT-ATTTTG

                       
       1171 ATTTTATTTTG
          1 ATTTTATTTTG

                      *
       1182 ATTTTATTTTC
          1 ATTTTATTTTG

              *      
       1193 ATCTTATTT
          1 ATTTTATTT

       1202 ATTTTAAGAT


Statistics
Matches: 29,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
  11   24  0.83
  12    5  0.17

ACGTcount: A:0.19, C:0.05, G:0.07, T:0.70


Consensus pattern (11 bp):   
ATTTTATTTTG
Done.