Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00004.P2

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: 12295
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31


Found at i:6029 original size:78 final size:78

Alignment explanation


    Indices: 5900--6055  Score: 258
    Period size: 78  Copynumber: 2.0  Consensus size: 78

       5890 CTCATATTCT

                                              *                         *    
       5900 ACCATTAAACCATGATCCCTTGATCTCACCAGCTGGGAGAGTTGGTGATCATGTTGATAATGATC
          1 ACCATTAAACCATGATCCCTTGATCTCACCAGCTAGGAGAGTTGGTGATCATGTTGATAACGATC

                    *    
       5965 ACCATGGAGTTTG
         66 ACCATGGACTTTG

                       *                *                              *     
       5978 ACCATTAAACCCTGATCCCTTGATCTCATCAGCTAGGAGAGTTGGTGATCATGTTGATAGCGATC
          1 ACCATTAAACCATGATCCCTTGATCTCACCAGCTAGGAGAGTTGGTGATCATGTTGATAACGATC

                         
       6043 ACCATGGACTTTG
         66 ACCATGGACTTTG

       6056 TGTACCAGAA


Statistics
Matches: 72,  Mismatches: 6, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  78   72  1.00

ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29


Consensus pattern (78 bp):   
ACCATTAAACCATGATCCCTTGATCTCACCAGCTAGGAGAGTTGGTGATCATGTTGATAACGATC
ACCATGGACTTTG

Found at i:10464 original size:45 final size:44

Alignment explanation


    Indices: 10368--10492  Score: 159
    Period size: 42  Copynumber: 2.9  Consensus size: 44

      10358 GATATCCCCG

                *                                       
      10368 TCAATAAAAAAAAAAG--AAGAAAAAGTACTGGGTTAATTGCCT
          1 TCAAAAAAAAAAAAAGAAAAGAAAAAGTACTGGGTTAATTGCCT

               *  *       *                             
      10410 T--GAAGAAAAAAAGGAAAAGAAAAAGTACTGGGTTAATTGCCT
          1 TCAAAAAAAAAAAAAGAAAAGAAAAAGTACTGGGTTAATTGCCT

                                           *    *    
      10452 TCAAAAAAAAAAAAAGAATAAGAAAAAGTACAGGGTAAATT
          1 TCAAAAAAAAAAAAAGAA-AAGAAAAAGTACTGGGTTAATT

      10493 TTCATTCTTC


Statistics
Matches: 69,  Mismatches: 9, Indels: 7
        0.81            0.11        0.08

Matches are distributed among these distances:
  40    9  0.13
  42   28  0.41
  44   12  0.17
  45   20  0.29

ACGTcount: A:0.56, C:0.07, G:0.18, T:0.18


Consensus pattern (44 bp):   
TCAAAAAAAAAAAAAGAAAAGAAAAAGTACTGGGTTAATTGCCT
Done.