Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01552.C1

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: 2342
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37


Found at i:1937 original size:16 final size:16

Alignment explanation


    Indices: 1916--1966  Score: 63
    Period size: 15  Copynumber: 3.3  Consensus size: 16

       1906 TTATGGGTTT

                            
       1916 ACTTTTTACTGATTTC
          1 ACTTTTTACTGATTTC

                        *    
       1932 AC-TTTTA-TGGGTTT-
          1 ACTTTTTACT-GATTTC

                            
       1946 ACTTTTTACTGATTTC
          1 ACTTTTTACTGATTTC

                 
       1962 ACTTT
          1 ACTTT

       1967 CATTACAGTA


Statistics
Matches: 29,  Mismatches: 2, Indels: 8
        0.74            0.05        0.21

Matches are distributed among these distances:
  14    3  0.10
  15   18  0.62
  16    8  0.28

ACGTcount: A:0.18, C:0.16, G:0.10, T:0.57


Consensus pattern (16 bp):   
ACTTTTTACTGATTTC

Found at i:1941 original size:30 final size:30

Alignment explanation


    Indices: 1906--1966  Score: 122
    Period size: 30  Copynumber: 2.0  Consensus size: 30

       1896 AGTTTTTTTA

                                          
       1906 TTATGGGTTTACTTTTTACTGATTTCACTT
          1 TTATGGGTTTACTTTTTACTGATTTCACTT

                                          
       1936 TTATGGGTTTACTTTTTACTGATTTCACTT
          1 TTATGGGTTTACTTTTTACTGATTTCACTT

             
       1966 T
          1 T

       1967 CATTACAGTA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  30   31  1.00

ACGTcount: A:0.16, C:0.13, G:0.13, T:0.57


Consensus pattern (30 bp):   
TTATGGGTTTACTTTTTACTGATTTCACTT

Found at i:1952 original size:15 final size:15

Alignment explanation


    Indices: 1906--1953  Score: 55
    Period size: 15  Copynumber: 3.2  Consensus size: 15

       1896 AGTTTTTTTA

                           
       1906 TTATGGGTTTACTTT
          1 TTATGGGTTTACTTT

                   *         
       1921 TTACT-GATTTCAC-TT
          1 TTA-TGGGTTT-ACTTT

                           
       1936 TTATGGGTTTACTTT
          1 TTATGGGTTTACTTT

               
       1951 TTA
          1 TTA

       1954 CTGATTTCAC


Statistics
Matches: 27,  Mismatches: 2, Indels: 8
        0.73            0.05        0.22

Matches are distributed among these distances:
  14    3  0.11
  15   21  0.78
  16    3  0.11

ACGTcount: A:0.17, C:0.10, G:0.15, T:0.58


Consensus pattern (15 bp):   
TTATGGGTTTACTTT
Done.