Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000585.1 Kokia drynarioides strain JFW-HI SEQ_111514, 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: 4173
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35


Found at i:1058 original size:17 final size:17

Alignment explanation


    Indices: 1033--1087  Score: 58
    Period size: 17  Copynumber: 3.2  Consensus size: 17

       1023 TAACTGGACT

                *    *       
       1033 TTTTTAATTGATTTAAA
          1 TTTTAAATTAATTTAAA

                     *        
       1050 TTTTAAATTCATATTAAA
          1 TTTTAAATTAAT-TTAAA

                              
       1068 -TTTAAACTTAATTTAAA
          1 TTTTAAA-TTAATTTAAA

               
       1085 TTT
          1 TTT

       1088 AAACTTAAAA


Statistics
Matches: 32,  Mismatches: 3, Indels: 5
        0.80            0.08        0.12

Matches are distributed among these distances:
  17   21  0.66
  18   11  0.34

ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55


Consensus pattern (17 bp):   
TTTTAAATTAATTTAAA

Found at i:1088 original size:17 final size:17

Alignment explanation


    Indices: 1043--1127  Score: 73
    Period size: 17  Copynumber: 4.8  Consensus size: 17

       1033 TTTTTAATTG

                             *
       1043 ATTTAAATTTTAAA-TTC
          1 ATTTAAA-TTTAAACTTA

                              
       1060 ATATTAAATTTAAACTTA
          1 AT-TTAAATTTAAACTTA

                              
       1078 ATTTAAATTTAAACTTAA
          1 ATTTAAATTTAAACTT-A

             ***              
       1096 AAGAAAAGTTTAAACTTA
          1 ATTTAAA-TTTAAACTTA

             **           
       1114 AACTAAATTTAAAC
          1 ATTTAAATTTAAAC

       1128 CCAAAATGAA


Statistics
Matches: 58,  Mismatches: 6, Indels: 8
        0.81            0.08        0.11

Matches are distributed among these distances:
  17   29  0.50
  18   20  0.34
  19    9  0.16

ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40


Consensus pattern (17 bp):   
ATTTAAATTTAAACTTA
Done.