Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00387.F3

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: 2687
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34


Found at i:130 original size:6 final size:6

Alignment explanation


    Indices: 88--130  Score: 59
    Period size: 6  Copynumber: 7.2  Consensus size: 6

         78 ACCCATACGA

                   *      *      *                            
         88 TCCCTT CCCCTT CCCCTT CCCCTT TCCCTT TCCCTT TCCCTT T
          1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T

        131 GGTTTTGAAA


Statistics
Matches: 35,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   6   35  1.00

ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44


Consensus pattern (6 bp):   
TCCCTT

Found at i:130 original size:12 final size:12

Alignment explanation


    Indices: 88--129  Score: 66
    Period size: 12  Copynumber: 3.5  Consensus size: 12

         78 ACCCATACGA

                        
         88 TCCCTTCCCCTT
          1 TCCCTTCCCCTT

            *           
        100 CCCCTTCCCCTT
          1 TCCCTTCCCCTT

                  *     
        112 TCCCTTTCCCTT
          1 TCCCTTCCCCTT

                  
        124 TCCCTT
          1 TCCCTT

        130 TGGTTTTGAA


Statistics
Matches: 27,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  12   27  1.00

ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43


Consensus pattern (12 bp):   
TCCCTTCCCCTT

Found at i:2644 original size:19 final size:21

Alignment explanation


    Indices: 2616--2663  Score: 64
    Period size: 20  Copynumber: 2.4  Consensus size: 21

       2606 TTATTATTTA

                                 
       2616 TTTTAGTTTTGATTCTAA-AT
          1 TTTTAGTTTTGATTCTAATAT

                      *   *      
       2636 TTTTA-TTTTTATTTTAATAT
          1 TTTTAGTTTTGATTCTAATAT

                    
       2656 TTTTAGTT
          1 TTTTAGTT

       2664 ACAATTTTAA


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  19   10  0.42
  20   12  0.50
  21    2  0.08

ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69


Consensus pattern (21 bp):   
TTTTAGTTTTGATTCTAATAT

Done.