Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00860.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: 4386
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29


Found at i:756 original size:3 final size:3

Alignment explanation


    Indices: 748--781  Score: 50
    Period size: 3  Copynumber: 11.3  Consensus size: 3

        738 GATTCCAATA

                              *                  *       
        748 ATG ATG ATG ATG ATA ATG ATG ATG ATG AAG ATG A
          1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A

        782 CTTGTATGAT


Statistics
Matches: 27,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
   3   27  1.00

ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29


Consensus pattern (3 bp):   
ATG

Found at i:763 original size:15 final size:15

Alignment explanation


    Indices: 745--775  Score: 62
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        735 GATGATTCCA

                           
        745 ATAATGATGATGATG
          1 ATAATGATGATGATG

                           
        760 ATAATGATGATGATG
          1 ATAATGATGATGATG

             
        775 A
          1 A

        776 AGATGACTTG


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32


Consensus pattern (15 bp):   
ATAATGATGATGATG

Found at i:3330 original size:150 final size:149

Alignment explanation


    Indices: 3059--3497  Score: 616
    Period size: 150  Copynumber: 2.9  Consensus size: 149

       3049 AGAAGAGAAA

                            **                      *                       *
       3059 GCACAGTGAAGAAAATGATGGAAGGAAAACTGATAAAAAGCGTGGAGGACA-GACTCCTAGAAGC
          1 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGAT-AAAAGAGTGGAGGA-AGGACTCCTAGAAGT

                    * *         *             *                           *  
       3123 GAGACACATGATGGAATTCCTCACTCTTCTCCATTCAATGTGATGGGTAGTAGTAGATCCTCGGT
         64 GAGACACACGGTGGAATTCCCCACTCTTCTCCATACAATGTGATGGGTAGTAGTAGATCCTCAGT

                                 
       3188 GGAAGGTGCCTCCCCCAAATT
        129 GGAAGGTGCCTCCCCCAAATT

                                                                             
       3209 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAAAATGAGTGGAGGAAGGACTCCTAGAAGTG
          1 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAAAA-GAGTGGAGGAAGGACTCCTAGAAGTG

                                           *     *                           
       3274 AGACACACGGTGGAATTCCCCACTCTTCTCCGTACAACGTGATGGGTAGTAGTAGATCCTCAGTG
         65 AGACACACGGTGGAATTCCCCACTCTTCTCCATACAATGTGATGGGTAGTAGTAGATCCTCAGTG

                       **       
       3339 GAAGGTGCCTCTTCCAAATT
        130 GAAGGTGCCTCCCCCAAATT

                **                         *                                 
       3359 GCACTCTGAAGAAAATCTTGGAAGGAAAACTAATAAGAAGAGT---GGAAGGACTCCTAGAAGTG
          1 GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAA-AAGAGTGGAGGAAGGACTCCTAGAAGTG

                 *  *          *             *                 *             
       3421 AGACATACAGTGGAATTCCGCACTCTTCTCCATCCAATGTGATGGGTAGTATTAGATCCTCAGTG
         65 AGACACACGGTGGAATTCCCCACTCTTCTCCATACAATGTGATGGGTAGTAGTAGATCCTCAGTG

               *        
       3486 GAATGTGCCTCC
        130 GAAGGTGCCTCC

       3498 AGATCGCCTA


Statistics
Matches: 261,  Mismatches: 25, Indels: 9
        0.88            0.08        0.03

Matches are distributed among these distances:
 147   87  0.33
 149    5  0.02
 150  167  0.64
 151    2  0.01

ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22


Consensus pattern (149 bp):   
GCACAGTGAAGAAAATCTTGGAAGGAAAACTGATAAAAGAGTGGAGGAAGGACTCCTAGAAGTGA
GACACACGGTGGAATTCCCCACTCTTCTCCATACAATGTGATGGGTAGTAGTAGATCCTCAGTGG
AAGGTGCCTCCCCCAAATT

Done.