Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02289.N34

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: 2178
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35


Found at i:1216 original size:43 final size:43

Alignment explanation


    Indices: 1144--1257  Score: 165
    Period size: 43  Copynumber: 2.7  Consensus size: 43

       1134 GGTTATGTTC

                *                **              *     
       1144 TATGAGAAAAGTGTCGCTAAATATCATGCTTTTTAGCGGCGTT
          1 TATGGGAAAAGTGTCGCTAAAGGTCATGCTTTTTAGCAGCGTT

                 *                  *                  
       1187 TATGGTAAAAGTGTCGCTAAAGGTTATGCTTTTTAGCAGCGTT
          1 TATGGGAAAAGTGTCGCTAAAGGTCATGCTTTTTAGCAGCGTT

                         *              
       1230 TATGGGAAAAGTGCCGCTAAAGGTCATG
          1 TATGGGAAAAGTGTCGCTAAAGGTCATG

       1258 TTCTATAGTG


Statistics
Matches: 62,  Mismatches: 9, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  43   62  1.00

ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32


Consensus pattern (43 bp):   
TATGGGAAAAGTGTCGCTAAAGGTCATGCTTTTTAGCAGCGTT

Found at i:1317 original size:15 final size:15

Alignment explanation


    Indices: 1297--1336  Score: 80
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       1287 TCGCAAAATT

                           
       1297 TAGTGGCATTAGCTA
          1 TAGTGGCATTAGCTA

                           
       1312 TAGTGGCATTAGCTA
          1 TAGTGGCATTAGCTA

                      
       1327 TAGTGGCATT
          1 TAGTGGCATT

       1337 TTTTGCAACG


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

Matches are distributed among these distances:
  15   25  1.00

ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35


Consensus pattern (15 bp):   
TAGTGGCATTAGCTA
Done.