Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005877.1 Kokia drynarioides strain JFW-HI SEQ_120207, whole genome shotgun sequence

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, 714

Length: 1190
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24


Found at i:672 original size:18 final size:17

Alignment explanation


    Indices: 649--701  Score: 70
    Period size: 18  Copynumber: 3.0  Consensus size: 17

        639 GGTATTGAGG

                              
        649 AAGAAGGAGAAGAAAGAA
          1 AAGAAGGAGAA-AAAGAA

                  *          
        667 AAGAAGAAGAAAAAGAA
          1 AAGAAGGAGAAAAAGAA

            *                 
        684 GAGAAGGAAGAAAAAGAA
          1 AAGAAGG-AGAAAAAGAA

        702 TAATATGTTG


Statistics
Matches: 31,  Mismatches: 3, Indels: 2
        0.86            0.08        0.06

Matches are distributed among these distances:
  17   11  0.35
  18   20  0.65

ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00


Consensus pattern (17 bp):   
AAGAAGGAGAAAAAGAA

Found at i:1124 original size:16 final size:17

Alignment explanation


    Indices: 1099--1141  Score: 52
    Period size: 16  Copynumber: 2.6  Consensus size: 17

       1089 CATGCATTTC

                 *      *    
       1099 TTTTAATTGTCATTGCA
          1 TTTTATTTGTCACTGCA

                       *     
       1116 TTTT-TTTGTCCCTGCA
          1 TTTTATTTGTCACTGCA

                      
       1132 TTTTATTTGT
          1 TTTTATTTGT

       1142 TTTCATAGTT


Statistics
Matches: 22,  Mismatches: 3, Indels: 2
        0.81            0.11        0.07

Matches are distributed among these distances:
  16   13  0.59
  17    9  0.41

ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60


Consensus pattern (17 bp):   
TTTTATTTGTCACTGCA
Done.