Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005450.1 Kokia drynarioides strain JFW-HI SEQ_119492, 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: 3776
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31


Found at i:2336 original size:17 final size:17

Alignment explanation


    Indices: 2294--2353  Score: 59
    Period size: 17  Copynumber: 3.4  Consensus size: 17

       2284 CTATTTACAT

                               
       2294 AAAAATTATAAAAAAATTA
          1 AAAAATTAT--AAAAATTA

              *               
       2313 ATTAAATTATAAAAATTA
          1 A-AAAATTATAAAAATTA

                         *    
       2331 AAAAATTA-AAATGATTA
          1 AAAAATTATAAA-AATTA

                  
       2348 AAAAAT
          1 AAAAAT

       2354 GAAATTAATT


Statistics
Matches: 36,  Mismatches: 3, Indels: 6
        0.80            0.07        0.13

Matches are distributed among these distances:
  16    3  0.08
  17   16  0.44
  18    9  0.25
  19    1  0.03
  20    7  0.19

ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30


Consensus pattern (17 bp):   
AAAAATTATAAAAATTA

Found at i:2705 original size:29 final size:29

Alignment explanation


    Indices: 2672--2735  Score: 74
    Period size: 29  Copynumber: 2.2  Consensus size: 29

       2662 CAAACACGGG

                   **        * *   *   * 
       2672 GTAAAGCGTGTCCATGTTAGCACGCTTTA
          1 GTAAAGCACGTCCATGTCAACACCCTTCA

                                         
       2701 GTAAAGCACGTCCATGTCAACACCCTTCA
          1 GTAAAGCACGTCCATGTCAACACCCTTCA

                  
       2730 GTAAAG
          1 GTAAAG

       2736 TGCATCCACG


Statistics
Matches: 29,  Mismatches: 6, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  29   29  1.00

ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25


Consensus pattern (29 bp):   
GTAAAGCACGTCCATGTCAACACCCTTCA
Done.