Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000851.1 Kokia drynarioides strain JFW-HI SEQ_111956, 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: 11069
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34


Found at i:911 original size:70 final size:71

Alignment explanation


    Indices: 826--969  Score: 202
    Period size: 70  Copynumber: 2.0  Consensus size: 71

        816 AATAATAGTG

                                 *                                           
        826 ATGAACGATAGAGGTGGATTAGCTATTGAGAGTTACTGAATTTGA-AAATTTTCAC-TTTTCAAA
          1 ATGAACGATAGAGGTGGATTAACTATTGAGAGTTACTGAATTT-ACAAATTTTCACTTTTTCAAA

                   
        889 TTATTTA
         65 TTATTTA

                      *      *          *      *           *    *            
        896 ATGAACGATATAGGTGGGTTAACTATTGGGAGTTATTGAATTTACAAGTTTTTACTTTTTCAAAT
          1 ATGAACGATAGAGGTGGATTAACTATTGAGAGTTACTGAATTTACAAATTTTCACTTTTTCAAAT

                  
        961 TATTTA
         66 TATTTA

               
        967 ATG
          1 ATG

        970 TATTTTAATG


Statistics
Matches: 65,  Mismatches: 7, Indels: 3
        0.87            0.09        0.04

Matches are distributed among these distances:
  69    1  0.02
  70   46  0.71
  71   18  0.28

ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41


Consensus pattern (71 bp):   
ATGAACGATAGAGGTGGATTAACTATTGAGAGTTACTGAATTTACAAATTTTCACTTTTTCAAAT
TATTTA

Found at i:4936 original size:22 final size:22

Alignment explanation


    Indices: 4911--4956  Score: 83
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       4901 AAGATGATTA

                                  
       4911 TTGTATGCATTGATCTATCGAT
          1 TTGTATGCATTGATCTATCGAT

                *                 
       4933 TTGTGTGCATTGATCTATCGAT
          1 TTGTATGCATTGATCTATCGAT

              
       4955 TT
          1 TT

       4957 TGTACGTAGC


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   23  1.00

ACGTcount: A:0.20, C:0.13, G:0.20, T:0.48


Consensus pattern (22 bp):   
TTGTATGCATTGATCTATCGAT
Done.