Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008325.1 Kokia drynarioides strain JFW-HI SEQ_122990, 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: 12866
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37


Found at i:10718 original size:43 final size:39

Alignment explanation


    Indices: 10619--10711  Score: 113
    Period size: 37  Copynumber: 2.4  Consensus size: 39

      10609 TTAAATTTTA

                                                   
      10619 ATATAATAT-AATATTTATATTTTTATAATGTTATTAAT
          1 ATATAATATGAATATTTATATTTTTATAATGTTATTAAT

                    *                                  
      10657 -TAGTAATTTG-AT-TTTATATTTTTATAATGTTAATTATCAT
          1 ATA-TAATATGAATATTTATATTTTTATAATGTT-ATTA--AT

                           
      10697 ATATAATATGAATAT
          1 ATATAATATGAATAT

      10712 CATATATATT


Statistics
Matches: 45,  Mismatches: 2, Indels: 12
        0.76            0.03        0.20

Matches are distributed among these distances:
  37   21  0.47
  38   11  0.24
  40    8  0.18
  41    4  0.09
  42    1  0.02

ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54


Consensus pattern (39 bp):   
ATATAATATGAATATTTATATTTTTATAATGTTATTAAT

Found at i:12571 original size:44 final size:44

Alignment explanation


    Indices: 12482--12569  Score: 106
    Period size: 44  Copynumber: 2.0  Consensus size: 44

      12472 TAATGTCGAG

                  *                   *          *      
      12482 TTAAGAGTTAGAATATGTAGTTAAAATAAGAAGATTAGGAAAAA
          1 TTAAGAATTAGAATATGTAGTTAAAACAAGAAGATTAAGAAAAA

                          *                    *         
      12526 TTAAGAATTAGAATGTGTAGTCT-AAACAAGAAAGGTTAAGAAAA
          1 TTAAGAATTAGAATATGTAGT-TAAAACAAG-AAGATTAAGAAAA

      12570 TTCAAGGATT


Statistics
Matches: 37,  Mismatches: 5, Indels: 3
        0.82            0.11        0.07

Matches are distributed among these distances:
  44   25  0.68
  45   12  0.32

ACGTcount: A:0.51, C:0.02, G:0.20, T:0.26


Consensus pattern (44 bp):   
TTAAGAATTAGAATATGTAGTTAAAACAAGAAGATTAAGAAAAA
Done.