Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g01507.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, 1000

Length: 5581
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26


Found at i:122 original size:35 final size:35

Alignment explanation


    Indices: 83--154  Score: 119
    Period size: 35  Copynumber: 2.1  Consensus size: 35

         73 CATCTCCGGA

                               *                
         83 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
          1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT

                                               
        118 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
          1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT

              
        153 GC
          1 GC

        155 GATCTTAGAC


Statistics
Matches: 35,  Mismatches: 1, Indels: 2
        0.92            0.03        0.05

Matches are distributed among these distances:
  34    4  0.11
  35   31  0.89

ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26


Consensus pattern (35 bp):   
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT

Found at i:255 original size:23 final size:24

Alignment explanation


    Indices: 216--269  Score: 60
    Period size: 23  Copynumber: 2.3  Consensus size: 24

        206 GATTTGATAT

                                     
        216 CTTGATG-ACTTTAGATCT-TAGCC
          1 CTTGATGTACTTTAGATCTGTA-CC

                         *          
        239 CTTGATGTA-TTTCGATCTGTACC
          1 CTTGATGTACTTTAGATCTGTACC

            *       
        262 GTTGATGT
          1 CTTGATGT

        270 TGGGAAGGCT


Statistics
Matches: 27,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  23   24  0.89
  24    3  0.11

ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43


Consensus pattern (24 bp):   
CTTGATGTACTTTAGATCTGTACC

Found at i:5352 original size:35 final size:35

Alignment explanation


    Indices: 5313--5384  Score: 119
    Period size: 35  Copynumber: 2.1  Consensus size: 35

       5303 CATCTCCGGA

                               *                
       5313 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
          1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT

                                               
       5348 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
          1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT

              
       5383 GC
          1 GC

       5385 GATCTTAGAC


Statistics
Matches: 35,  Mismatches: 1, Indels: 2
        0.92            0.03        0.05

Matches are distributed among these distances:
  34    4  0.11
  35   31  0.89

ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26


Consensus pattern (35 bp):   
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT

Found at i:5485 original size:23 final size:24

Alignment explanation


    Indices: 5446--5499  Score: 60
    Period size: 23  Copynumber: 2.3  Consensus size: 24

       5436 GATTTGATAT

                                     
       5446 CTTGATG-ACTTTAGATCT-TAGCC
          1 CTTGATGTACTTTAGATCTGTA-CC

                         *          
       5469 CTTGATGTA-TTTCGATCTGTACC
          1 CTTGATGTACTTTAGATCTGTACC

            *       
       5492 GTTGATGT
          1 CTTGATGT

       5500 TGGGAAGGCT


Statistics
Matches: 27,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  23   24  0.89
  24    3  0.11

ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43


Consensus pattern (24 bp):   
CTTGATGTACTTTAGATCTGTACC
Done.