Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00382.F2

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: 2290
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30


Found at i:283 original size:22 final size:21

Alignment explanation


    Indices: 258--298  Score: 55
    Period size: 22  Copynumber: 1.9  Consensus size: 21

        248 TAAAAAACCC

                 *                
        258 AAAAACAGGAAAAATAAAAAAT
          1 AAAAAAAGGAAAAA-AAAAAAT

                       *       
        280 AAAAAAAGGAAGAAAAAAA
          1 AAAAAAAGGAAAAAAAAAA

        299 CCTCAGAATT


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21    5  0.29
  22   12  0.71

ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05


Consensus pattern (21 bp):   
AAAAAAAGGAAAAAAAAAAAT

Found at i:1953 original size:87 final size:89

Alignment explanation


    Indices: 1815--1988  Score: 262
    Period size: 87  Copynumber: 2.0  Consensus size: 89

       1805 TAATGAGTTA

                        *       *     *                         *            
       1815 TCTTATTAAGTGGGAGGTTTCAAACGTAGAAAAAGAATTGCAGCAGTGCATCTTTTTCTGTTATT
          1 TCTTATTAAGTGAGAGGTTTAAAACGCAGAAAAAGAATTGCAGCAGTGCATCATTTTCTGTTATT

                                    
       1880 CGATCAAC-AAAGACAATGAGAAC
         66 CGATCAACAAAAGACAATGAGAAC

                                    *           *                            
       1903 TCTTATTAAGTGAGAGG-TTAAAATGCAGAAAAAGATTTGCAGCAGTGCATCATTTTCTGTTATT
          1 TCTTATTAAGTGAGAGGTTTAAAACGCAGAAAAAGAATTGCAGCAGTGCATCATTTTCTGTTATT

                 *        *       
       1967 CGATCGACAAAAGATAATGAGA
         66 CGATCAACAAAAGACAATGAGA

       1989 TGATGCAGGG


Statistics
Matches: 77,  Mismatches: 8, Indels: 2
        0.89            0.09        0.02

Matches are distributed among these distances:
  87   49  0.64
  88   28  0.36

ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30


Consensus pattern (89 bp):   
TCTTATTAAGTGAGAGGTTTAAAACGCAGAAAAAGAATTGCAGCAGTGCATCATTTTCTGTTATT
CGATCAACAAAAGACAATGAGAAC

Done.