Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g02237.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: 2955
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36


Found at i:1290 original size:5 final size:5

Alignment explanation


    Indices: 1280--1315  Score: 63
    Period size: 5  Copynumber: 7.0  Consensus size: 5

       1270 TATATTGTTC

                                                      
       1280 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTTT CTTTT
          1 CTTTT CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT

       1316 TTATCATTTT


Statistics
Matches: 30,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   5   25  0.83
   6    5  0.17

ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81


Consensus pattern (5 bp):   
CTTTT

Found at i:1325 original size:16 final size:16

Alignment explanation


    Indices: 1280--1325  Score: 51
    Period size: 15  Copynumber: 3.0  Consensus size: 16

       1270 TATATTGTTC

                    *       
       1280 CTTTTCTTTTC-TTTT
          1 CTTTTCTTATCTTTTT

                    *       
       1295 CTTTTCTTTTCTTTTT
          1 CTTTTCTTATCTTTTT

                       *    
       1311 CTTTT-TTATCATTTT
          1 CTTTTCTTATCTTTTT

       1326 GATCAAAAGA


Statistics
Matches: 28,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  15   19  0.68
  16    9  0.32

ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78


Consensus pattern (16 bp):   
CTTTTCTTATCTTTTT

Found at i:2183 original size:22 final size:23

Alignment explanation


    Indices: 2157--2199  Score: 61
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       2147 CTTTTAATGG

                  *                
       2157 TTTAAGGA-AAAAAATTAATTCA
          1 TTTAAGAATAAAAAATTAATTCA

                 *               
       2179 TTTAATAATAAAAAATTAATT
          1 TTTAAGAATAAAAAATTAATT

       2200 TAACTCAGTC


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  22    6  0.33
  23   12  0.67

ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37


Consensus pattern (23 bp):   
TTTAAGAATAAAAAATTAATTCA
Done.