Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012569.1 Kokia drynarioides strain JFW-HI SEQ_127578, 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: 15677
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34


Found at i:444 original size:17 final size:16

Alignment explanation


    Indices: 414--485  Score: 58
    Period size: 17  Copynumber: 4.3  Consensus size: 16

        404 ATAAGAACGA

                             
        414 AAATGCAACTACAATGT
          1 AAATGCAACTACAA-GT

                             
        431 AAATG-AACTAACAAGT
          1 AAATGCAACT-ACAAGT

                      *    * 
        447 AAAATGCAACAACAACT
          1 -AAATGCAACTACAAGT

                            * 
        464 AAAATGCAA-TGACAATT
          1 -AAATGCAACT-ACAAGT

                 
        481 AAATG
          1 AAATG

        486 AGATGCATGC


Statistics
Matches: 47,  Mismatches: 4, Indels: 9
        0.78            0.07        0.15

Matches are distributed among these distances:
  16   11  0.23
  17   33  0.70
  18    3  0.06

ACGTcount: A:0.54, C:0.15, G:0.11, T:0.19


Consensus pattern (16 bp):   
AAATGCAACTACAAGT

Found at i:10485 original size:30 final size:29

Alignment explanation


    Indices: 10418--10487  Score: 95
    Period size: 29  Copynumber: 2.4  Consensus size: 29

      10408 AGTTACTATA

                                *       *
      10418 AATTTTCCAAAGTTTAGGGGTGTGATGGT
          1 AATTTTCCAAAGTTTAGGGGCGTGATGGC

                       *              *  
      10447 AATTTTCCAAATTTTAGGGGCGTGATTGC
          1 AATTTTCCAAAGTTTAGGGGCGTGATGGC

                        
      10476 AATTTTTCCAAA
          1 AA-TTTTCCAAA

      10488 ATTTGTCGAA


Statistics
Matches: 36,  Mismatches: 4, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  29   27  0.75
  30    9  0.25

ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39


Consensus pattern (29 bp):   
AATTTTCCAAAGTTTAGGGGCGTGATGGC
Done.