Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010616.1 Kokia drynarioides strain JFW-HI SEQ_125549, 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: 7066
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31


Found at i:416 original size:17 final size:18

Alignment explanation


    Indices: 394--429  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        384 TAAATGAGTT

                              
        394 AATTAGGAT-TAAATTGG
          1 AATTAGGATATAAATTGG

                   *          
        411 AATTAGGGTATAAATTGG
          1 AATTAGGATATAAATTGG

             
        429 A
          1 A

        430 TAGAAATTCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  17    8  0.47
  18    9  0.53

ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33


Consensus pattern (18 bp):   
AATTAGGATATAAATTGG

Found at i:911 original size:41 final size:40

Alignment explanation


    Indices: 865--962  Score: 94
    Period size: 38  Copynumber: 2.5  Consensus size: 40

        855 ACCTTGAGTT

                               ** *               ** 
        865 GATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATTC
          1 GATGAGACACTGGGTGTCACCACTTTACTTCGGATAG-GCC

                  **                         *      
        906 GATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAGGCC
          1 GATGAGACACTGGGTGTCACCACTTTACTTCGGATAGGCC

                                
        943 GATGAGACACTGGGTGTCAC
          1 GATGAGACACTGGGTGTCAC

        963 TTTATTGCTT


Statistics
Matches: 44,  Mismatches: 10, Indels: 7
        0.72            0.16        0.11

Matches are distributed among these distances:
  37   10  0.23
  38   17  0.39
  39    4  0.09
  40    4  0.09
  41    9  0.20

ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30


Consensus pattern (40 bp):   
GATGAGACACTGGGTGTCACCACTTTACTTCGGATAGGCC
Done.