Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00174.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, 949

Length: 1583
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31


Found at i:1371 original size:77 final size:77

Alignment explanation


    Indices: 1261--1569  Score: 476
    Period size: 77  Copynumber: 4.0  Consensus size: 77

       1251 TGATTCGGGG

                 *              *                                            
       1261 AATTGGGAATTAGGGTTTTTTATTTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGC
          1 AATTGAGAATTAGGGTTTTTGA-TTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGC

                     *   
       1326 CTTTGATAACGAT
         65 CTTTGATAAGGAT

              *                    *                 *                       
       1339 AACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAGTTATATTGACCAAAGGAATAGCC
          1 AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC

                        
       1404 TTTGATAAGGAT
         66 TTTGATAAGGAT

             *   *              *                                      *     
       1416 ATTTGCG-ATTAGGGTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAGTAGCC
          1 AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC

                        
       1480 TTTGATAAGGAT
         66 TTTGATAAGGAT

                 *                    *                 *                   *
       1492 AATTGGGAATTAGGGTTTTTGATTGGTGTTCAATTTGTGTAATTTTATTGACCAAAGGAATAGCA
          1 AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC

                        
       1557 TTTGATAAGGAT
         66 TTTGATAAGGAT

             
       1569 A
          1 A

       1570 GACTTTAAAG


Statistics
Matches: 210,  Mismatches: 20, Indels: 3
        0.90            0.09        0.01

Matches are distributed among these distances:
  76   70  0.33
  77  121  0.58
  78   19  0.09

ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39


Consensus pattern (77 bp):   
AATTGAGAATTAGGGTTTTTGATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCC
TTTGATAAGGAT

Found at i:1555 original size:153 final size:154

Alignment explanation


    Indices: 1269--1569  Score: 505
    Period size: 153  Copynumber: 2.0  Consensus size: 154

       1259 GGAATTGGGA

                          *                                                  
       1269 ATTAGGGTTTTTTATTTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA
          1 ATTAGGGTTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA

                                                          *                  
       1334 ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAGTTATATTGACCAAAGGAA
         66 ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAA

                *                   
       1399 TAGCCTTTGATAAGGATATTTGCG
        131 TAGCATTTGATAAGGATATTTGCG

                                                                *            
       1423 ATTAGGG-TTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAGTAGCCTTTGATA
          1 ATTAGGGTTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA

             *     *  *                 *  *                 *               
       1487 AGGATAATTGGGAATTAGGGTTTTTGATTGGTGTTCAATTTGTGTAATTTTATTGACCAAAGGAA
         66 ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAA

                              
       1552 TAGCATTTGATAAGGATA
        131 TAGCATTTGATAAGGATA

       1570 GACTTTAAAG


Statistics
Matches: 137,  Mismatches: 10, Indels: 1
        0.93            0.07        0.01

Matches are distributed among these distances:
 153  130  0.95
 154    7  0.05

ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39


Consensus pattern (154 bp):   
ATTAGGGTTTTTTAATTGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAATAGCCTTTGATA
ACGATAACTGAGAATTAGGGTTTTTGATCGGAGTTCAATTTGTGTAATTATATTGACCAAAGGAA
TAGCATTTGATAAGGATATTTGCG
Done.