Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g00255.F4

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: 3405
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33


Found at i:1249 original size:83 final size:83

Alignment explanation


    Indices: 1110--1265  Score: 312
    Period size: 83  Copynumber: 1.9  Consensus size: 83

       1100 GCTTGAAATG

                                                                             
       1110 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA
          1 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA

                              
       1175 ATATTTTTTGCTTTATCT
         66 ATATTTTTTGCTTTATCT

                                                                             
       1193 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA
          1 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA

                    
       1258 ATATTTTT
         66 ATATTTTT

       1266 AATTCAAAAT


Statistics
Matches: 73,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  83   73  1.00

ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35


Consensus pattern (83 bp):   
TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA
ATATTTTTTGCTTTATCT

Found at i:1904 original size:21 final size:21

Alignment explanation


    Indices: 1880--1923  Score: 79
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       1870 ATGTGCGTGC

                                 
       1880 TTGGGCAAACATGGGTATCAG
          1 TTGGGCAAACATGGGTATCAG

                            *    
       1901 TTGGGCAAACATGGGTTTCAG
          1 TTGGGCAAACATGGGTATCAG

              
       1922 TT
          1 TT

       1924 ATGCCAACCA


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  21   22  1.00

ACGTcount: A:0.25, C:0.14, G:0.32, T:0.30


Consensus pattern (21 bp):   
TTGGGCAAACATGGGTATCAG
Done.