Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013585.1 Kokia drynarioides strain JFW-HI SEQ_128612, 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: 4613
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33


Found at i:1260 original size:24 final size:24

Alignment explanation


    Indices: 1233--1312  Score: 133
    Period size: 24  Copynumber: 3.3  Consensus size: 24

       1223 GCGATATGAT

                                *   
       1233 ATGGAAGACTTGGTGATATCATTA
          1 ATGGAAGACTTGGTGATATCTTTA

                            *       
       1257 ATGGAAGACTTGGTGAAATCTTTA
          1 ATGGAAGACTTGGTGATATCTTTA

                             *      
       1281 ATGGAAGACTTGGTGATTTCTTTA
          1 ATGGAAGACTTGGTGATATCTTTA

                    
       1305 ATGGAAGA
          1 ATGGAAGA

       1313 GCTTACGTCT


Statistics
Matches: 52,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  24   52  1.00

ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34


Consensus pattern (24 bp):   
ATGGAAGACTTGGTGATATCTTTA

Found at i:1392 original size:36 final size:36

Alignment explanation


    Indices: 1305--1396  Score: 96
    Period size: 36  Copynumber: 2.6  Consensus size: 36

       1295 GATTTCTTTA

                   *            *            *  
       1305 ATGGAAGAGCTTACGTCTCGGTTAGAGTGTAAGGTT
          1 ATGGAAGTGCTTACGTCTCGATTAGAGTGTAAGATT

                   * * *                    **   
       1341 ATGTG-ATTTCATACGTCTCGATTAGAGTGTATTATT
          1 ATG-GAAGTGCTTACGTCTCGATTAGAGTGTAAGATT

                                
       1377 ATGGAAGTGCTTACGTCTCG
          1 ATGGAAGTGCTTACGTCTCG

       1397 GTTAAGCGTA


Statistics
Matches: 43,  Mismatches: 11, Indels: 4
        0.74            0.19        0.07

Matches are distributed among these distances:
  35    1  0.02
  36   41  0.95
  37    1  0.02

ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36


Consensus pattern (36 bp):   
ATGGAAGTGCTTACGTCTCGATTAGAGTGTAAGATT
Done.