Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00452.F5

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: 3270
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35


Found at i:1876 original size:12 final size:12

Alignment explanation


    Indices: 1859--1883  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       1849 AGGAATCTCA

                        
       1859 ATTGAAGTTGTC
          1 ATTGAAGTTGTC

                        
       1871 ATTGAAGTTGTC
          1 ATTGAAGTTGTC

             
       1883 A
          1 A

       1884 GACTCTGGTT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40


Consensus pattern (12 bp):   
ATTGAAGTTGTC

Found at i:2079 original size:19 final size:20

Alignment explanation


    Indices: 2057--2101  Score: 65
    Period size: 21  Copynumber: 2.2  Consensus size: 20

       2047 GGTCTGCTGA

                                
       2057 TTTT-AAACTTCTCTGTGAT
          1 TTTTGAAACTTCTCTGTGAT

                  *              
       2076 TTTTGGTAACTTCTCTGTGAT
          1 TTTT-GAAACTTCTCTGTGAT

                 
       2097 TTTTG
          1 TTTTG

       2102 GTTTTCTCTT


Statistics
Matches: 23,  Mismatches: 1, Indels: 3
        0.85            0.04        0.11

Matches are distributed among these distances:
  19    4  0.17
  20    1  0.04
  21   18  0.78

ACGTcount: A:0.16, C:0.13, G:0.16, T:0.56


Consensus pattern (20 bp):   
TTTTGAAACTTCTCTGTGAT

Found at i:2088 original size:21 final size:21

Alignment explanation


    Indices: 2062--2103  Score: 84
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       2052 GCTGATTTTA

                                 
       2062 AACTTCTCTGTGATTTTTGGT
          1 AACTTCTCTGTGATTTTTGGT

                                 
       2083 AACTTCTCTGTGATTTTTGGT
          1 AACTTCTCTGTGATTTTTGGT

       2104 TTTCTCTTGT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.14, C:0.14, G:0.19, T:0.52


Consensus pattern (21 bp):   
AACTTCTCTGTGATTTTTGGT

Done.