Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g00704.N1

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, 577

Length: 963
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24


Found at i:34 original size:14 final size:13

Alignment explanation


    Indices: 8--40  Score: 50
    Period size: 14  Copynumber: 2.5  Consensus size: 13

          1 AATCAAA

                         
          8 AAAAAG-AAAAAG
          1 AAAAAGAAAAAAG

                          
         20 AAAAAGAAAAGAAG
          1 AAAAAGAAAA-AAG

                   
         34 AAAAAGA
          1 AAAAAGA

         41 GAGTGTTTGT


Statistics
Matches: 19,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  12    6  0.32
  13    3  0.16
  14   10  0.53

ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00


Consensus pattern (13 bp):   
AAAAAGAAAAAAG

Found at i:569 original size:48 final size:48

Alignment explanation


    Indices: 517--617  Score: 139
    Period size: 48  Copynumber: 2.1  Consensus size: 48

        507 ACCCGTCACT

                  *     *                    *              
        517 CCTTCAGTGCCTGCAACACCAACTAAACATTGGGCTCCAACTCCTGCA
          1 CCTTCAATGCCTACAACACCAACTAAACATTGGACTCCAACTCCTGCA

                                  * *   *          *        
        565 CCTTCAATGCCTACAACACCAATTCAACCTTGGACTCCAGCTCCTGCA
          1 CCTTCAATGCCTACAACACCAACTAAACATTGGACTCCAACTCCTGCA

                 
        613 CCTTC
          1 CCTTC

        618 GGCACCATCC


Statistics
Matches: 46,  Mismatches: 7, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  48   46  1.00

ACGTcount: A:0.26, C:0.40, G:0.12, T:0.23


Consensus pattern (48 bp):   
CCTTCAATGCCTACAACACCAACTAAACATTGGACTCCAACTCCTGCA

Found at i:738 original size:66 final size:66

Alignment explanation


    Indices: 644--936  Score: 403
    Period size: 66  Copynumber: 4.4  Consensus size: 66

        634 TCAGCAGTAG

                                                              *              
        644 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGTCTACACCTTCTGTG
          1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG

             
        709 C
         66 C

                                                                    *        
        710 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACAACTTCTGTG
          1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG

             
        775 C
         66 C

                     *  *                 *         *        *         *     
        776 CAGCAACACAATCTGAACCTTGGGCTCCAGGCCCTGCACCTTGGGCACCAACTACACCTACTGTG
          1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG

             
        841 C
         66 C

                        * *               *         *   *                    
        842 CAGCAACACCATCTCAACCTTGGGCTCCAGGCCCTGCACCATGGACACC-AGCTACACCTTCTGT
          1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGA-CTACACCTTCTGT

              
        906 GC
         65 GC

              *               *            
        908 CAAC-A-ACCATATCTGACCCTTGGGCTCCA
          1 CAGCAACACCATA--TGAACCTTGGGCTCCA

        937 ACTCCATCTC


Statistics
Matches: 206,  Mismatches: 18, Indels: 6
        0.90            0.08        0.03

Matches are distributed among these distances:
  64    5  0.02
  65    2  0.01
  66  199  0.97

ACGTcount: A:0.23, C:0.40, G:0.19, T:0.19


Consensus pattern (66 bp):   
CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG
C

Done.