Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00618.N1

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, 865

Length: 1443
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30


Found at i:1290 original size:26 final size:26

Alignment explanation


    Indices: 1249--1300  Score: 86
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       1239 GAAACAAGCT

                       *              
       1249 GCCTAGAATCTTCAAGAGTGTTGGTA
          1 GCCTAGAATCTACAAGAGTGTTGGTA

                   *                  
       1275 GCCTAGAGTCTACAAGAGTGTTGGTA
          1 GCCTAGAATCTACAAGAGTGTTGGTA

       1301 CTATAGAACA


Statistics
Matches: 24,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  26   24  1.00

ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29


Consensus pattern (26 bp):   
GCCTAGAATCTACAAGAGTGTTGGTA

Found at i:1307 original size:26 final size:26

Alignment explanation


    Indices: 1252--1308  Score: 71
    Period size: 26  Copynumber: 2.2  Consensus size: 26

       1242 ACAAGCTGCC

                    *                *
       1252 TAGAATCTTCAAGAGTGTTGGTAGCC
          1 TAGAATCTACAAGAGTGTTGGTAGCA

                *                      
       1278 TAGAGTCTACAAGAGTGTTGGTA-CTA
          1 TAGAATCTACAAGAGTGTTGGTAGC-A

                 
       1304 TAGAA
          1 TAGAA

       1309 CACCGTCGAT


Statistics
Matches: 26,  Mismatches: 4, Indels: 2
        0.81            0.12        0.06

Matches are distributed among these distances:
  25    1  0.04
  26   25  0.96

ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30


Consensus pattern (26 bp):   
TAGAATCTACAAGAGTGTTGGTAGCA

Found at i:1400 original size:45 final size:45

Alignment explanation


    Indices: 1336--1429  Score: 188
    Period size: 45  Copynumber: 2.1  Consensus size: 45

       1326 AATTTACACA

                                                         
       1336 TTGCCCAAAACATCTCTCATAATCCCTCAAAATTGACTTTAAAAC
          1 TTGCCCAAAACATCTCTCATAATCCCTCAAAATTGACTTTAAAAC

                                                         
       1381 TTGCCCAAAACATCTCTCATAATCCCTCAAAATTGACTTTAAAAC
          1 TTGCCCAAAACATCTCTCATAATCCCTCAAAATTGACTTTAAAAC

                
       1426 TTGC
          1 TTGC

       1430 GCTTCTCTTT


Statistics
Matches: 49,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  45   49  1.00

ACGTcount: A:0.36, C:0.29, G:0.05, T:0.30


Consensus pattern (45 bp):   
TTGCCCAAAACATCTCTCATAATCCCTCAAAATTGACTTTAAAAC
Done.