Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00392.P2

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: 5755
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:3227 original size:15 final size:16

Alignment explanation


    Indices: 3207--3236  Score: 53
    Period size: 15  Copynumber: 1.9  Consensus size: 16

       3197 ATCTTTTAAC

                            
       3207 AAAAAAAAGA-AAAAG
          1 AAAAAAAAGAGAAAAG

                           
       3222 AAAAAAAAGAGAAAA
          1 AAAAAAAAGAGAAAA

       3237 CAATATGAGA


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15   10  0.71
  16    4  0.29

ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00


Consensus pattern (16 bp):   
AAAAAAAAGAGAAAAG

Found at i:5324 original size:72 final size:72

Alignment explanation


    Indices: 5201--5334  Score: 198
    Period size: 72  Copynumber: 1.9  Consensus size: 72

       5191 GTGTTGAATC

                                                     *                       
       5201 TCTCCCAGAACAAGCTCTTTGGTGAACTGACTCCAGAATTAGCAAAACTTACAGATCTGGAATCG
          1 TCTCCCAGAACAAGCTCTTTGGTGAACTGACTCCAGAATTAACAAAACTTACAGATCTGGAATCG

                   
       5266 TTGGATG
         66 TTGGATG

                   *                       *               *      **       
       5273 TCTCCCATAACAAGCTCTTTGGTGAACT-ATGTCCAGAATTAACAAATCTTACATTTCTGGAA
          1 TCTCCCAGAACAAGCTCTTTGGTGAACTGA-CTCCAGAATTAACAAAACTTACAGATCTGGAA

       5335 GTATTCAACG


Statistics
Matches: 55,  Mismatches: 6, Indels: 2
        0.87            0.10        0.03

Matches are distributed among these distances:
  71    1  0.02
  72   54  0.98

ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29


Consensus pattern (72 bp):   
TCTCCCAGAACAAGCTCTTTGGTGAACTGACTCCAGAATTAACAAAACTTACAGATCTGGAATCG
TTGGATG
Done.