Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007065.1 Kokia drynarioides strain JFW-HI SEQ_121674, 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: 7108
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36


Found at i:3567 original size:29 final size:29

Alignment explanation


    Indices: 3533--3606  Score: 80
    Period size: 28  Copynumber: 2.6  Consensus size: 29

       3523 TTGTTTTAAA

                                         *
       3533 ATTTTAAATTTTAAAAAAT-ATTAAAAATT
          1 ATTTTAAATTTTAAAAAATAATT-AAAATC

                    **                   
       3562 ATTTTAAAAATT-AAAAATAATTAAAATC
          1 ATTTTAAATTTTAAAAAATAATTAAAATC

               *             
       3590 ATTATAAATTTATAAAA
          1 ATTTTAAATTT-TAAAA

       3607 TTTTTAAAGA


Statistics
Matches: 36,  Mismatches: 6, Indels: 5
        0.77            0.13        0.11

Matches are distributed among these distances:
  28   19  0.53
  29   14  0.39
  30    3  0.08

ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41


Consensus pattern (29 bp):   
ATTTTAAATTTTAAAAAATAATTAAAATC

Found at i:5517 original size:14 final size:15

Alignment explanation


    Indices: 5500--5537  Score: 53
    Period size: 14  Copynumber: 2.7  Consensus size: 15

       5490 TCACACTTTC

                       *   
       5500 TCACT-TTCAATTAT
          1 TCACTATTCAACTAT

                           
       5514 TCACTATTC-ACTAT
          1 TCACTATTCAACTAT

                      
       5528 TCACTATTCA
          1 TCACTATTCA

       5538 CTTCGTACAT


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  14   18  0.86
  15    3  0.14

ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45


Consensus pattern (15 bp):   
TCACTATTCAACTAT

Found at i:5523 original size:7 final size:7

Alignment explanation


    Indices: 5511--5539  Score: 58
    Period size: 7  Copynumber: 4.1  Consensus size: 7

       5501 CACTTTCAAT

                   
       5511 TATTCAC
          1 TATTCAC

                   
       5518 TATTCAC
          1 TATTCAC

                   
       5525 TATTCAC
          1 TATTCAC

                   
       5532 TATTCAC
          1 TATTCAC

             
       5539 T
          1 T

       5540 TCGTACATAA


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   22  1.00

ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45


Consensus pattern (7 bp):   
TATTCAC

Done.