Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004800.1 Kokia drynarioides strain JFW-HI SEQ_118428, 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: 13808
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33


Found at i:9452 original size:31 final size:32

Alignment explanation


    Indices: 9414--9531  Score: 125
    Period size: 32  Copynumber: 3.8  Consensus size: 32

       9404 TAAGGGGTCC

                          **       *        
       9414 AAATTATTTTTTCAGTTTTTAAGTCGCC-AAA
          1 AAATTATTTTTTCAACTTTTAAGGCGCCAAAA

                                     *       
       9445 AAATTATTTTTTTCAACTTTTAAGGGGCCAAAA
          1 AAATTA-TTTTTTCAACTTTTAAGGCGCCAAAA

                      **            *   *   
       9478 AAATTATTTTACCAACTTTTAAGGAGCCTAAA
          1 AAATTATTTTTTCAACTTTTAAGGCGCCAAAA

                 *                  
       9510 AAA--GTTTTTTCAACTTTTAAGG
          1 AAATTATTTTTTCAACTTTTAAGG

       9532 GATCTAAATT


Statistics
Matches: 74,  Mismatches: 11, Indels: 5
        0.82            0.12        0.06

Matches are distributed among these distances:
  30   16  0.22
  31    6  0.08
  32   43  0.58
  33    9  0.12

ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41


Consensus pattern (32 bp):   
AAATTATTTTTTCAACTTTTAAGGCGCCAAAA

Found at i:9539 original size:30 final size:30

Alignment explanation


    Indices: 9452--9539  Score: 99
    Period size: 30  Copynumber: 2.9  Consensus size: 30

       9442 AAAAAATTAT

                               *          
       9452 TTTTTTCAACTTTTAAGGGGCC-AAAAAAA
          1 TTTTTTCAACTTTTAAGGGACCTAAAAAAA

                                             *
       9481 TTATTTTACCAACTTTTAA-GGAGCCTAAAAAAG
          1 TT-TTTT--CAACTTTTAAGGGA-CCTAAAAAAA

                                *     
       9514 TTTTTTCAACTTTTAAGGGATCTAAA
          1 TTTTTTCAACTTTTAAGGGACCTAAA

       9540 TTTCAATTTA


Statistics
Matches: 50,  Mismatches: 3, Indels: 11
        0.78            0.05        0.17

Matches are distributed among these distances:
  29    2  0.04
  30   19  0.38
  31    5  0.10
  32   16  0.32
  33    8  0.16

ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38


Consensus pattern (30 bp):   
TTTTTTCAACTTTTAAGGGACCTAAAAAAA
Done.