Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g01644.P5

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: 7460
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33


Found at i:6534 original size:18 final size:18

Alignment explanation


    Indices: 6497--6570  Score: 87
    Period size: 18  Copynumber: 4.1  Consensus size: 18

       6487 CAATCCTAAC

                      * *  *  
       6497 TACTGTATACGTGAACAG
          1 TACTGTATACATAAATAG

                              
       6515 TACTGTATACATAAATAG
          1 TACTGTATACATAAATAG

               *               
       6533 TACCGTATACATAAAATAG
          1 TACTGTATACAT-AAATAG

                               
       6552 TA-TCGTATACATAAATAG
          1 TACT-GTATACATAAATAG

             
       6570 T
          1 T

       6571 GTCGTAAATG


Statistics
Matches: 49,  Mismatches: 5, Indels: 4
        0.84            0.09        0.07

Matches are distributed among these distances:
  18   33  0.67
  19   16  0.33

ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31


Consensus pattern (18 bp):   
TACTGTATACATAAATAG

Found at i:6551 original size:19 final size:18

Alignment explanation


    Indices: 6513--6570  Score: 89
    Period size: 18  Copynumber: 3.2  Consensus size: 18

       6503 ATACGTGAAC

                 *            
       6513 AGTACTGTATACATAAAT
          1 AGTACCGTATACATAAAT

                               
       6531 AGTACCGTATACATAAAAT
          1 AGTACCGTATACAT-AAAT

                *             
       6550 AGTATCGTATACATAAAT
          1 AGTACCGTATACATAAAT

               
       6568 AGT
          1 AGT

       6571 GTCGTAAATG


Statistics
Matches: 37,  Mismatches: 2, Indels: 2
        0.90            0.05        0.05

Matches are distributed among these distances:
  18   20  0.54
  19   17  0.46

ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31


Consensus pattern (18 bp):   
AGTACCGTATACATAAAT

Found at i:6575 original size:18 final size:18

Alignment explanation


    Indices: 6519--6576  Score: 89
    Period size: 18  Copynumber: 3.2  Consensus size: 18

       6509 GAACAGTACT

                            * 
       6519 GTATACATAAATAGTACC
          1 GTATACATAAATAGTATC

                               
       6537 GTATACATAAAATAGTATC
          1 GTATACAT-AAATAGTATC

                           *  
       6556 GTATACATAAATAGTGTC
          1 GTATACATAAATAGTATC

               
       6574 GTA
          1 GTA

       6577 AATGGTCGTA


Statistics
Matches: 37,  Mismatches: 2, Indels: 2
        0.90            0.05        0.05

Matches are distributed among these distances:
  18   20  0.54
  19   17  0.46

ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31


Consensus pattern (18 bp):   
GTATACATAAATAGTATC
Done.