Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00002.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: 3181
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37


Found at i:930 original size:39 final size:39

Alignment explanation


    Indices: 876--958  Score: 130
    Period size: 39  Copynumber: 2.1  Consensus size: 39

        866 CCACTGGCCA

                    *                              
        876 CCACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                                     *        **   
        915 CCACCATCATCGTTCACCAGTCAGGTAGTCACCATTGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                 
        954 CCACC
          1 CCACC

        959 CGTAACCACC


Statistics
Matches: 40,  Mismatches: 4, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  39   40  1.00

ACGTcount: A:0.22, C:0.40, G:0.18, T:0.20


Consensus pattern (39 bp):   
CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

Found at i:2473 original size:27 final size:26

Alignment explanation


    Indices: 2443--2499  Score: 82
    Period size: 26  Copynumber: 2.2  Consensus size: 26

       2433 TCTGTTTTTG

                                        
       2443 GGATTTTTGGAAT-CCCTTGCTTCATAA
          1 GGATTTTTGGAATCCCCTT-CTTCAT-A

                                      
       2470 GGA-TTTTGGAATCCCCTTCTTCATA
          1 GGATTTTTGGAATCCCCTTCTTCATA

                 
       2495 GGATT
          1 GGATT

       2500 GTGATTTCAG


Statistics
Matches: 28,  Mismatches: 0, Indels: 5
        0.85            0.00        0.15

Matches are distributed among these distances:
  25    4  0.14
  26   16  0.57
  27    8  0.29

ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40


Consensus pattern (26 bp):   
GGATTTTTGGAATCCCCTTCTTCATA

Found at i:2897 original size:39 final size:39

Alignment explanation


    Indices: 2847--2927  Score: 126
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       2837 ACCGGCCACA

                  *                                
       2847 ACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGTAC
          1 ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC

                                   *        *    * 
       2886 ACCATCATCGTTCACCAGTCAGGTAGTCACCATCGGTCC
          1 ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC

               
       2925 ACC
          1 ACC

       2928 CGTCACCACC


Statistics
Matches: 38,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  39   38  1.00

ACGTcount: A:0.23, C:0.38, G:0.19, T:0.20


Consensus pattern (39 bp):   
ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC
Done.