Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00122.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: 5775
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35


Found at i:4777 original size:28 final size:29

Alignment explanation


    Indices: 4745--4824  Score: 83
    Period size: 30  Copynumber: 2.7  Consensus size: 29

       4735 GTCTAACACA

                                   *      
       4745 TACATAACAA-GTTT-ACATATAGGGTTTG
          1 TACATAA-AAGGTTTCACATATAAGGTTTG

                                          
       4773 TACATAAAAGGTTTGCACATATAAGGTTTG
          1 TACATAAAAGGTTT-CACATATAAGGTTTG

              *   * *             
       4803 TATATATAGGGTTTGCACATAT
          1 TACATAAAAGGTTT-CACATAT

       4825 TAAATCACAT


Statistics
Matches: 45,  Mismatches: 4, Indels: 4
        0.85            0.08        0.08

Matches are distributed among these distances:
  27    2  0.04
  28   11  0.24
  30   32  0.71

ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36


Consensus pattern (29 bp):   
TACATAAAAGGTTTCACATATAAGGTTTG

Found at i:4778 original size:15 final size:15

Alignment explanation


    Indices: 4758--4824  Score: 80
    Period size: 15  Copynumber: 4.5  Consensus size: 15

       4748 ATAACAAGTT

                    *      
       4758 TACATATAGGGTTTG
          1 TACATATAAGGTTTG

                  *        
       4773 TACATAAAAGGTTTG
          1 TACATATAAGGTTTG

            *              
       4788 CACATATAAGGTTTG
          1 TACATATAAGGTTTG

              *     *      
       4803 TATATATAGGGTTTG
          1 TACATATAAGGTTTG

            *      
       4818 CACATAT
          1 TACATAT

       4825 TAAATCACAT


Statistics
Matches: 43,  Mismatches: 9, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  15   43  1.00

ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37


Consensus pattern (15 bp):   
TACATATAAGGTTTG

Found at i:4795 original size:30 final size:30

Alignment explanation


    Indices: 4759--4824  Score: 96
    Period size: 30  Copynumber: 2.2  Consensus size: 30

       4749 TAACAAGTTT

                   *                      
       4759 ACATATAGGGTTTGTACATAAAAGGTTTGC
          1 ACATATAAGGTTTGTACATAAAAGGTTTGC

                            *   * *       
       4789 ACATATAAGGTTTGTATATATAGGGTTTGC
          1 ACATATAAGGTTTGTACATAAAAGGTTTGC

                  
       4819 ACATAT
          1 ACATAT

       4825 TAAATCACAT


Statistics
Matches: 32,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  30   32  1.00

ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36


Consensus pattern (30 bp):   
ACATATAAGGTTTGTACATAAAAGGTTTGC
Done.