Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00121.P4

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: 7894
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31


Found at i:1932 original size:39 final size:39

Alignment explanation


    Indices: 1886--1968  Score: 121
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       1876 CCACCGGCAA

                    *                              
       1886 CCACCATCTTCGTTCACCAGTCAGGCAGTCACCACCGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                            *      * *        *    
       1925 CCACCATCATCGTTCATCAGTCATGTAGTCACCATCGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                 
       1964 CCACC
          1 CCACC

       1969 CGTCACCACC


Statistics
Matches: 39,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  39   39  1.00

ACGTcount: A:0.22, C:0.40, G:0.16, T:0.23


Consensus pattern (39 bp):   
CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

Found at i:2514 original size:16 final size:16

Alignment explanation


    Indices: 2493--2523  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       2483 ATTTGGCTTA

                            
       2493 CTGTTTCCCTCTTTTT
          1 CTGTTTCCCTCTTTTT

                  *        
       2509 CTGTTTTCCTCTTTT
          1 CTGTTTCCCTCTTTT

       2524 GTATATATTA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.00, C:0.29, G:0.06, T:0.65


Consensus pattern (16 bp):   
CTGTTTCCCTCTTTTT

Found at i:5006 original size:21 final size:21

Alignment explanation


    Indices: 4967--5006  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       4957 TTTATTTAAA

                       *         
       4967 AATATAAATGATATAGAATAT
          1 AATATAAATGAAATAGAATAT

                          *    
       4988 AATATAAATGAAATGGAAT
          1 AATATAAATGAAATAGAAT

       5007 TACTGATAAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30


Consensus pattern (21 bp):   
AATATAAATGAAATAGAATAT
Done.