Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011801.1 Kokia drynarioides strain JFW-HI SEQ_126796, 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: 20541
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35


Found at i:5609 original size:16 final size:16

Alignment explanation


    Indices: 5588--5622  Score: 54
    Period size: 16  Copynumber: 2.2  Consensus size: 16

       5578 TTAAAATTAT

                             
       5588 TAAAATAAACA-AATAA
          1 TAAAATAAA-ATAATAA

                            
       5604 TAAAATAAAATAATAA
          1 TAAAATAAAATAATAA

               
       5620 TAA
          1 TAA

       5623 TAACTAACAA


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  15    1  0.06
  16   17  0.94

ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23


Consensus pattern (16 bp):   
TAAAATAAAATAATAA

Found at i:11771 original size:2 final size:2

Alignment explanation


    Indices: 11764--11796  Score: 66
    Period size: 2  Copynumber: 16.5  Consensus size: 2

      11754 TGTAATTGAG

                                                             
      11764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

      11797 GTTCATTAAG


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:18733 original size:6 final size:6

Alignment explanation


    Indices: 18722--18751  Score: 51
    Period size: 6  Copynumber: 5.0  Consensus size: 6

      18712 TCTACTTCTG

                                      *       
      18722 CCTCGA CCTCGA CCTCGA CCTCGG CCTCGA
          1 CCTCGA CCTCGA CCTCGA CCTCGA CCTCGA

      18752 ATTCCTCGTC


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.13, C:0.50, G:0.20, T:0.17


Consensus pattern (6 bp):   
CCTCGA

Found at i:18878 original size:12 final size:12

Alignment explanation


    Indices: 18863--18887  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

      18853 ACCTCTATAT

                        
      18863 CCTCCACGATTG
          1 CCTCCACGATTG

                        
      18875 CCTCCACGATTG
          1 CCTCCACGATTG

             
      18887 C
          1 C

      18888 TTGTACCTTC


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24


Consensus pattern (12 bp):   
CCTCCACGATTG
Done.