Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002247.1 Kokia drynarioides strain JFW-HI SEQ_114254, 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, 738

Length: 1230
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40


Found at i:307 original size:9 final size:9

Alignment explanation


    Indices: 295--385  Score: 64
    Period size: 9  Copynumber: 10.0  Consensus size: 9

        285 TTTAATGGTT

                     
        295 TTTTTATAA
          1 TTTTTATAA

                      
        304 -TTTTATAAA
          1 TTTTTAT-AA

                 *     
        313 TTCTTAATAAA
          1 TT-TTTAT-AA

                     
        324 TTTTTATAA
          1 TTTTTATAA

                  * *
        333 TTTTT-GAC
          1 TTTTTATAA

                      
        341 TTATTT-TAA
          1 TT-TTTATAA

                      
        350 TTTTCTATAA
          1 TTTT-TATAA

                *    
        360 TTTTAAT-A
          1 TTTTTATAA

                *    
        368 TTTTAATAA
          1 TTTTTATAA

                     
        377 TTTTTATAA
          1 TTTTTATAA

        386 ATTTCTGATT


Statistics
Matches: 67,  Mismatches: 8, Indels: 14
        0.75            0.09        0.16

Matches are distributed among these distances:
   8   19  0.28
   9   27  0.40
  10   12  0.18
  11    9  0.13

ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60


Consensus pattern (9 bp):   
TTTTTATAA

Found at i:362 original size:16 final size:17

Alignment explanation


    Indices: 343--380  Score: 53
    Period size: 17  Copynumber: 2.3  Consensus size: 17

        333 TTTTTGACTT

                              
        343 ATTTTAAT-TTTCT-ATA
          1 ATTTTAATATTT-TAATA

                             
        359 ATTTTAATATTTTAATA
          1 ATTTTAATATTTTAATA

                 
        376 ATTTT
          1 ATTTT

        381 TATAAATTTC


Statistics
Matches: 20,  Mismatches: 0, Indels: 3
        0.87            0.00        0.13

Matches are distributed among these distances:
  16    9  0.45
  17   11  0.55

ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63


Consensus pattern (17 bp):   
ATTTTAATATTTTAATA

Done.