Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00569.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, 846

Length: 1410
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23


Found at i:43 original size:14 final size:14

Alignment explanation


    Indices: 24--50  Score: 54
    Period size: 14  Copynumber: 1.9  Consensus size: 14

         14 TTAGTTTAAG

                          
         24 ATTTCTCCATTAGC
          1 ATTTCTCCATTAGC

                         
         38 ATTTCTCCATTAG
          1 ATTTCTCCATTAG

         51 ACCTTTACAG


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

Matches are distributed among these distances:
  14   13  1.00

ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44


Consensus pattern (14 bp):   
ATTTCTCCATTAGC

Found at i:295 original size:15 final size:17

Alignment explanation


    Indices: 256--300  Score: 58
    Period size: 15  Copynumber: 2.7  Consensus size: 17

        246 TAATGGGGGA

                              
        256 GGAAGAGAAAAAACCAGT
          1 GGAAGAGAAAAAA-CAGT

            *                
        274 TGAAGAGAAAAAA-A-T
          1 GGAAGAGAAAAAACAGT

                        
        289 GGAAGAGAAAAA
          1 GGAAGAGAAAAA

        301 GGTTGAAGAT


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  15   12  0.48
  16    1  0.04
  18   12  0.48

ACGTcount: A:0.62, C:0.04, G:0.27, T:0.07


Consensus pattern (17 bp):   
GGAAGAGAAAAAACAGT

Found at i:308 original size:15 final size:15

Alignment explanation


    Indices: 257--309  Score: 52
    Period size: 15  Copynumber: 3.3  Consensus size: 15

        247 AATGGGGGAG

                              
        257 GAAGAGAAAAAACCAGTT
          1 GAAGAG-AAAAA--AGTT

                        * *
        275 GAAGAGAAAAAAATG
          1 GAAGAGAAAAAAGTT

                       *   
        290 GAAGAGAAAAAGGTT
          1 GAAGAGAAAAAAGTT

                 
        305 GAAGA
          1 GAAGA

        310 TGATGGAAAG


Statistics
Matches: 30,  Mismatches: 5, Indels: 3
        0.79            0.13        0.08

Matches are distributed among these distances:
  15   19  0.63
  17    5  0.17
  18    6  0.20

ACGTcount: A:0.58, C:0.04, G:0.28, T:0.09


Consensus pattern (15 bp):   
GAAGAGAAAAAAGTT
Done.