Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006786.1 Kokia drynarioides strain JFW-HI SEQ_121385, 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: 17082
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31


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:12940 original size:25 final size:26

Alignment explanation


    Indices: 12909--12969  Score: 83
    Period size: 25  Copynumber: 2.4  Consensus size: 26

      12899 TAAAATATCA

                                       
      12909 CTCTTATGAGCT-AG-TCAGAACATTG
          1 CTCTTATGAGCTCAGAT-AGAACATTG

                                 *    
      12934 CTCTTATGAG-TCAGATAGAATATTG
          1 CTCTTATGAGCTCAGATAGAACATTG

                       
      12959 CTCTTATGAGC
          1 CTCTTATGAGC

      12970 CAAAAGGAAT


Statistics
Matches: 32,  Mismatches: 1, Indels: 5
        0.84            0.03        0.13

Matches are distributed among these distances:
  24    1  0.03
  25   30  0.94
  26    1  0.03

ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34


Consensus pattern (26 bp):   
CTCTTATGAGCTCAGATAGAACATTG

Found at i:12979 original size:25 final size:25

Alignment explanation


    Indices: 12909--12981  Score: 76
    Period size: 25  Copynumber: 2.9  Consensus size: 25

      12899 TAAAATATCA

                       *  **    *    
      12909 CTCTTATGAGCTAGTCAGAACATTG
          1 CTCTTATGAGCCAGAAAGAATATTG

                      *    *         
      12934 CTCTTATGAGTCAGATAGAATATTG
          1 CTCTTATGAGCCAGAAAGAATATTG

                                    
      12959 CTCTTATGAGCCA-AAAGGAATAT
          1 CTCTTATGAGCCAGAAA-GAATAT

      12982 AGGTTTTACG


Statistics
Matches: 40,  Mismatches: 7, Indels: 2
        0.82            0.14        0.04

Matches are distributed among these distances:
  24    2  0.05
  25   38  0.95

ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32


Consensus pattern (25 bp):   
CTCTTATGAGCCAGAAAGAATATTG
Done.