Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g02357.M7

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: 21869
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.19


Found at i:164 original size:51 final size:51

Alignment explanation


    Indices: 88--238  Score: 223
    Period size: 51  Copynumber: 3.0  Consensus size: 51

         78 GGAAAAGTAG

                            *               **                 
         88 ATGGCAACTGAAGCAGCGATCATTCAAGAACCTGTTTCCATAGTGGAAAAA
          1 ATGGCAACTGAAGCAGTGATCATTCAAGAACCCATTTCCATAGTGGAAAAA

              *         *       *                              
        139 ATTGCAACTGAATCAGTGATTATTCAAGAACCCATTTCCATAGTGGAAAAA
          1 ATGGCAACTGAAGCAGTGATCATTCAAGAACCCATTTCCATAGTGGAAAAA

                      *                           *           
        190 ATGGCAACTGGAGCAGTGATCATTCAAGAACCCATTTCAATAGT-GAAAA
          1 ATGGCAACTGAAGCAGTGATCATTCAAGAACCCATTTCCATAGTGGAAAA

        239 CAGCAGAGAG


Statistics
Matches: 89,  Mismatches: 11, Indels: 1
        0.88            0.11        0.01

Matches are distributed among these distances:
  50    5  0.06
  51   84  0.94

ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24


Consensus pattern (51 bp):   
ATGGCAACTGAAGCAGTGATCATTCAAGAACCCATTTCCATAGTGGAAAAA

Found at i:7548 original size:6 final size:6

Alignment explanation


    Indices: 7537--7623  Score: 120
    Period size: 6  Copynumber: 14.5  Consensus size: 6

       7527 AGACATAAAG

                                   *      *               *        
       7537 GAAGCT GAAGCT GAAGCT GATGCT GATGCT GAAGCT GAAGAT GAAGCT
          1 GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT

              *      *      *                            
       7585 GATGCT GATGCT GATGCT GAAGCT GAAGCT GAAGCT GAA
          1 GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAA

       7624 AGAGAAAAGA


Statistics
Matches: 75,  Mismatches: 6, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   6   75  1.00

ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22


Consensus pattern (6 bp):   
GAAGCT

Found at i:7573 original size:30 final size:30

Alignment explanation


    Indices: 7537--7622  Score: 145
    Period size: 30  Copynumber: 2.9  Consensus size: 30

       7527 AGACATAAAG

                                          
       7537 GAAGCTGAAGCTGAAGCTGATGCTGATGCT
          1 GAAGCTGAAGCTGAAGCTGATGCTGATGCT

                      *                   
       7567 GAAGCTGAAGATGAAGCTGATGCTGATGCT
          1 GAAGCTGAAGCTGAAGCTGATGCTGATGCT

              *                 *     
       7597 GATGCTGAAGCTGAAGCTGAAGCTGA
          1 GAAGCTGAAGCTGAAGCTGATGCTGA

       7623 AAGAGAAAAG


Statistics
Matches: 52,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  30   52  1.00

ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22


Consensus pattern (30 bp):   
GAAGCTGAAGCTGAAGCTGATGCTGATGCT

Found at i:16197 original size:312 final size:312

Alignment explanation


    Indices: 15631--16259  Score: 945
    Period size: 312  Copynumber: 2.0  Consensus size: 312

      15621 ATCTTTGCCT

                         **             *              *                     
      15631 TCAGAATTGACTGTTGAGAACCCAAAGCGTGGAGCTGAGGCCAGTGAAGAAGAGGAAGAAAAGGT
          1 TCAGAATTGACTGAAGAGAACCCAAAGCATGGAGCTGAGGCCAATGAAGAAGAGGAAGAAAAGGT

                                                       *          *          
      15696 GAAGGAAGTGGAAATTCTCGAAAAGGAAAGACCTCAGGAGCCTGAAGCTGTTATGGATCAAGAAA
         66 GAAGGAAGTGGAAATTCTCGAAAAGGAAAGACCTCAGGAGCCTAAAGCTGTTATAGATCAAGAAA

                     *                                           *           
      15761 CCATTATAGTTCAGGCTTCAATAACAGAGGAATCACAAAAGATTGAAGCAAACGAAGAGAAAAGG
        131 CCATTATAGCTCAGGCTTCAATAACAGAGGAATCACAAAAGATTGAAGCAAACAAAGAGAAAAGG

                  *           *  *         *         *                       
      15826 AAAGAAGCCAAAAAGCTTGACGATGGGAACCGTGAAGACTCGTCAGCTGGAGAAACAGAAAAGCT
        196 AAAGAAACCAAAAAGCTTCACAATGGGAACCATGAAGACTCATCAGCTGGAGAAACAGAAAAGCT

                    *           ** *                 *          
      15891 AAATGAGCTTCAATTAGTTACTAGAGAAGAAATTGCTTCTGGTCAGTCTTCC
        261 AAATGAGCGTCAATTAGTTAAAAAAGAAGAAATTGCTTCTGATCAGTCTTCC

                                  *                                **        
      15943 TCAGAATTGACTGAAGAGAACCTAAAGCATGGAGCTGAGGCCAATGAAGAAGAGGGGGAAAAGGT
          1 TCAGAATTGACTGAAGAGAACCCAAAGCATGGAGCTGAGGCCAATGAAGAAGAGGAAGAAAAGGT

                         *              *                                    
      16008 GAAGGAAGTGGAACTTCTCGAAAAGGAAGGACCTCAGGAGCCTAAAGCTGTTATAGATCAAGAAA
         66 GAAGGAAGTGGAAATTCTCGAAAAGGAAAGACCTCAGGAGCCTAAAGCTGTTATAGATCAAGAAA

                   *           **    *            *                          
      16073 CCATTATTGCTCAGGCTTCCTTAACTGAGGAATCACAAGAGATTGAAGCAAACAAAGA-AAAAGG
        131 CCATTATAGCTCAGGCTTCAATAACAGAGGAATCACAAAAGATTGAAGCAAACAAAGAGAAAA-G

                     **                                          *       *   
      16137 GAAAGAAACTGAAAAGCTTCACAATGGGAACCATGAAGACTCATCAGCTGGAGTAACAGAAGAGC
        195 GAAAGAAACCAAAAAGCTTCACAATGGGAACCATGAAGACTCATCAGCTGGAGAAACAGAAAAGC

                         *                                       
      16202 TAAATGAGCGTCAGTTAGTTAAAAAAGAAGAAATTGCTTCTGATCAGTCTTCC
        260 TAAATGAGCGTCAATTAGTTAAAAAAGAAGAAATTGCTTCTGATCAGTCTTCC

                 
      16255 TCAGA
          1 TCAGA

      16260 CAAGCAACTT


Statistics
Matches: 283,  Mismatches: 33, Indels: 2
        0.89            0.10        0.01

Matches are distributed among these distances:
 311    4  0.01
 312  279  0.99

ACGTcount: A:0.40, C:0.16, G:0.26, T:0.18


Consensus pattern (312 bp):   
TCAGAATTGACTGAAGAGAACCCAAAGCATGGAGCTGAGGCCAATGAAGAAGAGGAAGAAAAGGT
GAAGGAAGTGGAAATTCTCGAAAAGGAAAGACCTCAGGAGCCTAAAGCTGTTATAGATCAAGAAA
CCATTATAGCTCAGGCTTCAATAACAGAGGAATCACAAAAGATTGAAGCAAACAAAGAGAAAAGG
AAAGAAACCAAAAAGCTTCACAATGGGAACCATGAAGACTCATCAGCTGGAGAAACAGAAAAGCT
AAATGAGCGTCAATTAGTTAAAAAAGAAGAAATTGCTTCTGATCAGTCTTCC
Done.