Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008691.1 Kokia drynarioides strain JFW-HI SEQ_123373, 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: 20301
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35


Found at i:5350 original size:16 final size:16

Alignment explanation


    Indices: 5324--5370  Score: 58
    Period size: 16  Copynumber: 2.9  Consensus size: 16

       5314 TCATTAAAGA

                         *   
       5324 TTTAGATTATTTTGAGT
          1 TTTA-ATTATTTTAAGT

                            
       5341 TTTAATTATTTTAAGT
          1 TTTAATTATTTTAAGT

              *   *       
       5357 TTAAATCATTTTAA
          1 TTTAATTATTTTAA

       5371 ATTATTTCAG


Statistics
Matches: 27,  Mismatches: 3, Indels: 1
        0.87            0.10        0.03

Matches are distributed among these distances:
  16   23  0.85
  17    4  0.15

ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57


Consensus pattern (16 bp):   
TTTAATTATTTTAAGT

Found at i:11370 original size:16 final size:16

Alignment explanation


    Indices: 11349--11379  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

      11339 ACTGACCACA

                            
      11349 ATTCTATCCCATTACG
          1 ATTCTATCCCATTACG

                   *       
      11365 ATTCTATTCCATTAC
          1 ATTCTATCCCATTAC

      11380 AGTGAACCAA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42


Consensus pattern (16 bp):   
ATTCTATCCCATTACG

Found at i:16656 original size:29 final size:29

Alignment explanation


    Indices: 16623--16682  Score: 111
    Period size: 29  Copynumber: 2.1  Consensus size: 29

      16613 TTTAACATTT

                 *                       
      16623 TGATATTACACACTTACCTTGCACACACG
          1 TGATAATACACACTTACCTTGCACACACG

                                         
      16652 TGATAATACACACTTACCTTGCACACACG
          1 TGATAATACACACTTACCTTGCACACACG

              
      16681 TG
          1 TG

      16683 CTCGAACTCG


Statistics
Matches: 30,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  29   30  1.00

ACGTcount: A:0.32, C:0.30, G:0.12, T:0.27


Consensus pattern (29 bp):   
TGATAATACACACTTACCTTGCACACACG

Done.