Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01334.P1

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: 2675
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32


Found at i:1290 original size:3 final size:3

Alignment explanation


    Indices: 1282--1309  Score: 56
    Period size: 3  Copynumber: 9.3  Consensus size: 3

       1272 GAAGTTGCAA

                                                 
       1282 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A

       1310 TTATTATTAT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   25  1.00

ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32


Consensus pattern (3 bp):   
AAT

Found at i:1539 original size:18 final size:18

Alignment explanation


    Indices: 1518--1567  Score: 50
    Period size: 18  Copynumber: 2.8  Consensus size: 18

       1508 ATTTTACTGT

                            * 
       1518 TTTTTATTAATTTATATA
          1 TTTTTATTAATTTATAAA

                   *      *    
       1536 TTTTTA-AAGATTTTTAAA
          1 TTTTTATTA-ATTTATAAA

                           
       1554 TTTTT-TTAATTTAT
          1 TTTTTATTAATTTAT

       1568 GCTCGTCACA


Statistics
Matches: 25,  Mismatches: 5, Indels: 5
        0.71            0.14        0.14

Matches are distributed among these distances:
  17    6  0.24
  18   19  0.76

ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66


Consensus pattern (18 bp):   
TTTTTATTAATTTATAAA

Found at i:2027 original size:2 final size:2

Alignment explanation


    Indices: 2017--2054  Score: 67
    Period size: 2  Copynumber: 18.5  Consensus size: 2

       2007 TTTTCTTGAA

                                                                    
       2017 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       2055 AATTCATTAT


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

Matches are distributed among these distances:
   2   33  0.94
   3    2  0.06

ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47


Consensus pattern (2 bp):   
AT

Found at i:2110 original size:2 final size:2

Alignment explanation


    Indices: 2103--2130  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

       2093 ACTTTCTAAG

                                                     
       2103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       2131 CATTATAAAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.