Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007715.1 Kokia drynarioides strain JFW-HI SEQ_122348, 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: 8501
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34


Found at i:997 original size:16 final size:16

Alignment explanation


    Indices: 976--1006  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

        966 TTATGGATCC

                            
        976 CATTTTACCTTTATTA
          1 CATTTTACCTTTATTA

                   *       
        992 CATTTTATCTTTATT
          1 CATTTTACCTTTATT

       1007 TTCACATTAT


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:0.23, C:0.16, G:0.00, T:0.61


Consensus pattern (16 bp):   
CATTTTACCTTTATTA

Found at i:3307 original size:18 final size:18

Alignment explanation


    Indices: 3282--3330  Score: 73
    Period size: 17  Copynumber: 2.8  Consensus size: 18

       3272 AACTCTATAA

                              
       3282 CCTTTTGGGATTTTAAAT
          1 CCTTTTGGGATTTTAAAT

                  *           
       3300 -CTTTTTGGATTTTAAAT
          1 CCTTTTGGGATTTTAAAT

                 *        
       3317 CCTTTAGGGATTTT
          1 CCTTTTGGGATTTT

       3331 CATATAAATA


Statistics
Matches: 27,  Mismatches: 3, Indels: 2
        0.84            0.09        0.06

Matches are distributed among these distances:
  17   16  0.59
  18   11  0.41

ACGTcount: A:0.20, C:0.10, G:0.16, T:0.53


Consensus pattern (18 bp):   
CCTTTTGGGATTTTAAAT

Found at i:5303 original size:14 final size:16

Alignment explanation


    Indices: 5276--5307  Score: 50
    Period size: 14  Copynumber: 2.1  Consensus size: 16

       5266 TAACTCAATA

                            
       5276 AAAAAATATAATTTGC
          1 AAAAAATATAATTTGC

                            
       5292 AAAAAAT-T-ATTTGC
          1 AAAAAATATAATTTGC

              
       5306 AA
          1 AA

       5308 TATTCACTTC


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  14    8  0.50
  15    1  0.06
  16    7  0.44

ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31


Consensus pattern (16 bp):   
AAAAAATATAATTTGC
Done.