Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006689.1 Kokia drynarioides strain JFW-HI SEQ_121283, 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: 8385
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35


Found at i:366 original size:17 final size:18

Alignment explanation


    Indices: 335--368  Score: 52
    Period size: 17  Copynumber: 1.9  Consensus size: 18

        325 AATTTAACTT

                              
        335 TAATTAAATTGTTTAAAA
          1 TAATTAAATTGTTTAAAA

                      *      
        353 TAATT-AATTTTTTAAA
          1 TAATTAAATTGTTTAAA

        369 TTATAAACAA


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  17   10  0.67
  18    5  0.33

ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50


Consensus pattern (18 bp):   
TAATTAAATTGTTTAAAA

Found at i:1444 original size:8 final size:7

Alignment explanation


    Indices: 1426--1466  Score: 55
    Period size: 7  Copynumber: 5.7  Consensus size: 7

       1416 CTTTTTGATG

                   
       1426 AAAATAA
          1 AAAATAA

               *   
       1433 AAATTAA
          1 AAAATAA

                   
       1440 AAAATAA
          1 AAAATAA

              *     
       1447 AATATAAA
          1 AAAAT-AA

                   
       1455 AAAATAA
          1 AAAATAA

                 
       1462 AAAAT
          1 AAAAT

       1467 CTCAAGGTTA


Statistics
Matches: 29,  Mismatches: 4, Indels: 2
        0.83            0.11        0.06

Matches are distributed among these distances:
   7   23  0.79
   8    6  0.21

ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20


Consensus pattern (7 bp):   
AAAATAA

Found at i:1458 original size:15 final size:14

Alignment explanation


    Indices: 1426--1464  Score: 60
    Period size: 15  Copynumber: 2.7  Consensus size: 14

       1416 CTTTTTGATG

                       *  
       1426 AAAATAAAAATTAA
          1 AAAATAAAAATAAA

                           
       1440 AAAATAAAATATAAA
          1 AAAATAAAA-ATAAA

                      
       1455 AAAATAAAAA
          1 AAAATAAAAA

       1465 ATCTCAAGGT


Statistics
Matches: 23,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  14   10  0.43
  15   13  0.57

ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18


Consensus pattern (14 bp):   
AAAATAAAAATAAA
Done.