Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010877.1 Kokia drynarioides strain JFW-HI SEQ_125845, 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: 5503
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35


Found at i:970 original size:23 final size:23

Alignment explanation


    Indices: 921--967  Score: 58
    Period size: 23  Copynumber: 2.0  Consensus size: 23

        911 AGCCATGTTA

                  *   *    *       
        921 TATTTATATTTAATTCTTAAATT
          1 TATTTAAATTAAATTATTAAATT

                                    
        944 TATTTAAATTAAATTATTATAATT
          1 TATTTAAATTAAATTATTA-AATT

        968 ATTATGTAGT


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  23   16  0.80
  24    4  0.20

ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57


Consensus pattern (23 bp):   
TATTTAAATTAAATTATTAAATT

Found at i:971 original size:17 final size:17

Alignment explanation


    Indices: 927--971  Score: 51
    Period size: 17  Copynumber: 2.8  Consensus size: 17

        917 GTTATATTTA

                     *       
        927 TATTTAATTCTTAAATT
          1 TATTTAATTATTAAATT

                             
        944 TATTTAA--ATTAAA-T
          1 TATTTAATTATTAAATT

                          
        958 TATTATAATTATTA
          1 TATT-TAATTATTA

        972 TGTAGTGTGA


Statistics
Matches: 24,  Mismatches: 1, Indels: 6
        0.77            0.03        0.19

Matches are distributed among these distances:
  14    5  0.21
  15    8  0.33
  17   11  0.46

ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56


Consensus pattern (17 bp):   
TATTTAATTATTAAATT

Found at i:2688 original size:3 final size:3

Alignment explanation


    Indices: 2682--2707  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

       2672 TCTATTATTG

                                              
       2682 TAA TAA TAA TAA TAA TAA TAA TAA TA
          1 TAA TAA TAA TAA TAA TAA TAA TAA TA

       2708 TCAATCAAGA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   23  1.00

ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35


Consensus pattern (3 bp):   
TAA

Done.