Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01731.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: 3346
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25


Found at i:2177 original size:84 final size:84

Alignment explanation


    Indices: 1921--2218  Score: 261
    Period size: 84  Copynumber: 3.5  Consensus size: 84

       1911 TTGAGGCCTG

                           *       *  *   *                *        *   *    
       1921 TACTCCAAGGAGACTCAAGTTCAAGCAAAGGGT-ATATGTT-A-ATAGCATAAATGATGAAAACC
          1 TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAAT-TGTTGACA-ACCA-AAATGGTGATAACC

                       *       ** 
       1983 AAAACAGTAGAGTCAAGGAGTT
         63 AAAACAGTAGAATCAAGGAACT

               *            *        *       *                      *        
       2005 TACCCCGAA-GAGACTCAAGTTCAGACGAAGAGAAATTGTTGACAACCAAAATGGTAATAACCAA
          1 TACTCC-AAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAA

               *               * 
       2069 AACGGTA-AAGTCAAGG-AGT
         65 AACAGTAGAA-TCAAGGAACT

                                                                           * 
       2088 GTACTCCAAGGAGACTGAAGTTTC-GGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACAA
          1 -TACTCCAAGGAGACTGAAG-TTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCA

                         *       
       2152 AAACAGTAGAATCGAGGAACT
         64 AAACAGTAGAATCAAGGAACT

                       *   *              * *              
       2173 TACTCCAAGGATACACG-AGTTCAGGCGAAAATTAATTGTTGACAAC
          1 TACTCCAAGGAGAC-TGAAGTTCAGGCGAAGAGTAATTGTTGACAAC

       2219 ATAGATGATC


Statistics
Matches: 175,  Mismatches: 27, Indels: 24
        0.77            0.12        0.11

Matches are distributed among these distances:
  83    7  0.04
  84  151  0.86
  85   16  0.09
  86    1  0.01

ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20


Consensus pattern (84 bp):   
TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAAA
ACAGTAGAATCAAGGAACT

Found at i:2678 original size:81 final size:81

Alignment explanation


    Indices: 2260--2677  Score: 669
    Period size: 81  Copynumber: 5.2  Consensus size: 81

       2250 AGGAGTTTAG

                               *         *                       *           
       2260 TCCAAGGAAACTTGAGTCCCGCCAAAGAAATCTTGACAACAGAAATTCTGATGTTCAAAATAGTA
          1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA

                            
       2325 GAGGTGAGGACTCTGC
         66 GAGGTGAGGACTCTGC

                       *    *       *                                        
       2341 TCC-AGCGAAATTTGATTCCTGCCGAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
          1 TCCAAG-GAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT

                             
       2405 AGAGGTGAGGACTCTGC
         65 AGAGGTGAGGACTCTGC

                     *                                                       
       2422 TCCAACGG-CACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
          1 TCCAA-GGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT

                        *    
       2486 AGAGGTGAGGACACTGC
         65 AGAGGTGAGGACTCTGC

                 **                     *                                    
       2503 TCCAACAAAACTTGAGTCCTGCCAAAGAGCTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
          1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA

                            
       2568 GAGGTGAGGACTCTGC
         66 GAGGTGAGGACTCTGC

                 **      *                                                   
       2584 TCCAACAAAACTTAAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
          1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA

               *            
       2649 GAGTTGAGGACTCTGC
         66 GAGGTGAGGACTCTGC

                         
       2665 TCCAAGGAAACTT
          1 TCCAAGGAAACTT

       2678 ATCTTCAGGC


Statistics
Matches: 312,  Mismatches: 21, Indels: 8
        0.91            0.06        0.02

Matches are distributed among these distances:
  80    2  0.01
  81  307  0.98
  82    2  0.01
  83    1  0.00

ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23


Consensus pattern (81 bp):   
TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
GAGGTGAGGACTCTGC
Done.