Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005292.1 Kokia drynarioides strain JFW-HI SEQ_119218, 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, 1000

Length: 2174
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31


Found at i:1351 original size:24 final size:25

Alignment explanation


    Indices: 1313--1410  Score: 99
    Period size: 27  Copynumber: 3.8  Consensus size: 25

       1303 GTGTGGTGGT

                  *   *              
       1313 GAAGCTTTTCGAGAGGGAG-GGGAG
          1 GAAGCTGTTCCAGAGGGAGAGGGAG

                                       
       1337 GAAGCTGTTCCAGAGGGAGATAGGGAG
          1 GAAGCTGTTCCAGAGGGAG--AGGGAG

                                * *    
       1364 GAAGCTGTTCCAGAGAGAGATAAGGAG
          1 GAAGCTGTTCCAGAG-G-GAGAGGGAG

                *    *          
       1391 GAAGTTGTTTCAGAGGGAGA
          1 GAAGCTGTTCCAGAGGGAGA

       1411 TAAGGAGGAA


Statistics
Matches: 62,  Mismatches: 7, Indels: 9
        0.79            0.09        0.12

Matches are distributed among these distances:
  24   17  0.27
  25    3  0.05
  26    1  0.02
  27   38  0.61
  28    1  0.02
  29    2  0.03

ACGTcount: A:0.31, C:0.09, G:0.43, T:0.17


Consensus pattern (25 bp):   
GAAGCTGTTCCAGAGGGAGAGGGAG

Found at i:1366 original size:27 final size:27

Alignment explanation


    Indices: 1333--1420  Score: 140
    Period size: 27  Copynumber: 3.3  Consensus size: 27

       1323 GAGAGGGAGG

                                      *
       1333 GGAGGAAGCTGTTCCAGAGGGAGATAG
          1 GGAGGAAGCTGTTCCAGAGGGAGATAA

                               *       
       1360 GGAGGAAGCTGTTCCAGAGAGAGATAA
          1 GGAGGAAGCTGTTCCAGAGGGAGATAA

                    *    *             
       1387 GGAGGAAGTTGTTTCAGAGGGAGATAA
          1 GGAGGAAGCTGTTCCAGAGGGAGATAA

                   
       1414 GGAGGAA
          1 GGAGGAA

       1421 CATAGGGAGG


Statistics
Matches: 56,  Mismatches: 5, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  27   56  1.00

ACGTcount: A:0.34, C:0.08, G:0.42, T:0.16


Consensus pattern (27 bp):   
GGAGGAAGCTGTTCCAGAGGGAGATAA
Done.