Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006785.1 Kokia drynarioides strain JFW-HI SEQ_121384, 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: 11715
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:2156 original size:14 final size:13

Alignment explanation


    Indices: 2132--2165  Score: 50
    Period size: 14  Copynumber: 2.5  Consensus size: 13

       2122 ACTTTTACCT

                         
       2132 TATTTTATTTTTA
          1 TATTTTATTTTTA

                          
       2145 TATTTATATTTTTA
          1 TATTT-TATTTTTA

                   
       2159 TACTTTT
          1 TA-TTTT

       2166 CAAACACTCT


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  13    5  0.26
  14   11  0.58
  15    3  0.16

ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74


Consensus pattern (13 bp):   
TATTTTATTTTTA

Found at i:7613 original size:25 final size:25

Alignment explanation


    Indices: 7517--7615  Score: 94
    Period size: 25  Copynumber: 3.9  Consensus size: 25

       7507 CAAAGTTTAG

                  *                  * 
       7517 CTCTTACGAGCCCA-AATAGAATATCA
          1 CTCTTATGAG-CCAGAA-AGAATATTA

                       *  *     *    
       7543 CTCTTATGAGCTAGTAAGAACATTA
          1 CTCTTATGAGCCAGAAAGAATATTA

                           *        *
       7568 CTCTTATGAGCCAGACAGAATATTG
          1 CTCTTATGAGCCAGAAAGAATATTA

                                    
       7593 CTCTTATGAGCCA-AAAGGAATAT
          1 CTCTTATGAGCCAGAAA-GAATAT

       7616 AGGTTTTACG


Statistics
Matches: 60,  Mismatches: 11, Indels: 5
        0.79            0.14        0.07

Matches are distributed among these distances:
  24    2  0.03
  25   48  0.80
  26   10  0.17

ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27


Consensus pattern (25 bp):   
CTCTTATGAGCCAGAAAGAATATTA

Found at i:7652 original size:25 final size:25

Alignment explanation


    Indices: 7621--7678  Score: 80
    Period size: 25  Copynumber: 2.3  Consensus size: 25

       7611 AATATAGGTT

                   **                
       7621 TTACGAGTTAGACAAAATATCGCTC
          1 TTACGAGCAAGACAAAATATCGCTC

              *         *            
       7646 TTCCGAGCAAGATAAAATATCGCTC
          1 TTACGAGCAAGACAAAATATCGCTC

                    
       7671 TTACGAGC
          1 TTACGAGC

       7679 CAGTCTTCAG


Statistics
Matches: 28,  Mismatches: 5, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  25   28  1.00

ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26


Consensus pattern (25 bp):   
TTACGAGCAAGACAAAATATCGCTC
Done.