Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00767.P2

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: 3756
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35


Found at i:1144 original size:33 final size:33

Alignment explanation


    Indices: 1101--1203  Score: 98
    Period size: 33  Copynumber: 3.1  Consensus size: 33

       1091 TTTTGCTACT

                 *          **               
       1101 ATTTTCTTATTATATTTTTACTATTTTGTTATC
          1 ATTTTATTATTATATTACTACTATTTTGTTATC

            *           **        *         *
       1134 CTTTTATTATTAGGTTACTACTTTTTTGTTATT
          1 ATTTTATTATTATATTACTACTATTTTGTTATC

                         *      *      *    *
       1167 ATTTTATTATTATGTTACTATTATTTTTTTATT
          1 ATTTTATTATTATATTACTACTATTTTGTTATC

                
       1200 ATTT
          1 ATTT

       1204 GAATATTGTA


Statistics
Matches: 57,  Mismatches: 13, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  33   57  1.00

ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67


Consensus pattern (33 bp):   
ATTTTATTATTATATTACTACTATTTTGTTATC

Found at i:1176 original size:11 final size:11

Alignment explanation


    Indices: 1100--1203  Score: 68
    Period size: 11  Copynumber: 9.5  Consensus size: 11

       1090 GTTTTGCTAC

                  *    
       1100 TATTTTCTTAT
          1 TATTTTATTAT

                       *
       1111 TATATTT-TTAC
          1 TAT-TTTATTAT

                  *    
       1122 TATTTTGTTAT
          1 TATTTTATTAT

            **         
       1133 CCTTTTATTAT
          1 TATTTTATTAT

              **   *    
       1144 TAGGTTACTACT
          1 TATTTTATTA-T

                  *    
       1156 T-TTTTGTTAT
          1 TATTTTATTAT

                       
       1166 TATTTTATTAT
          1 TATTTTATTAT

               *   *   
       1177 TATGTTACTAT
          1 TATTTTATTAT

                  *    
       1188 TATTTTTTTAT
          1 TATTTTATTAT

                 
       1199 TATTT
          1 TATTT

       1204 GAATATTGTA


Statistics
Matches: 69,  Mismatches: 20, Indels: 8
        0.71            0.21        0.08

Matches are distributed among these distances:
  10    5  0.07
  11   59  0.86
  12    5  0.07

ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67


Consensus pattern (11 bp):   
TATTTTATTAT

Found at i:1210 original size:22 final size:22

Alignment explanation


    Indices: 1163--1210  Score: 62
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       1153 ACTTTTTTGT

                                 *
       1163 TATTATTTTATTATTATGTTAC
          1 TATTATTTTATTATTATGTTAA

                     *             
       1185 TATTATTTTTTTATTAT-TTGAA
          1 TATTATTTTATTATTATGTT-AA

                
       1207 TATT
          1 TATT

       1211 GTATAACAGA


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  21    2  0.09
  22   21  0.91

ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67


Consensus pattern (22 bp):   
TATTATTTTATTATTATGTTAA
Done.