Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004924.1 Kokia drynarioides strain JFW-HI SEQ_118625, 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: 19523
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34


Found at i:605 original size:14 final size:14

Alignment explanation


    Indices: 581--621  Score: 55
    Period size: 14  Copynumber: 2.8  Consensus size: 14

        571 AGAGTGCTTT

                           
        581 AAAGCATAAAAATAA
          1 AAAG-ATAAAAATAA

                          
        596 AAAGATAAAAATAA
          1 AAAGATAAAAATAA

                *       
        610 AATAAATAAAAA
          1 AA-AGATAAAAA

        622 GTGTAGTTGT


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  14   12  0.50
  15   12  0.50

ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15


Consensus pattern (14 bp):   
AAAGATAAAAATAA

Found at i:606 original size:15 final size:15

Alignment explanation


    Indices: 586--621  Score: 56
    Period size: 14  Copynumber: 2.5  Consensus size: 15

        576 GCTTTAAAGC

                          *
        586 ATAAAAATAAAA-AG
          1 ATAAAAATAAAATAA

                           
        600 ATAAAAATAAAATAA
          1 ATAAAAATAAAATAA

                   
        615 ATAAAAA
          1 ATAAAAA

        622 GTGTAGTTGT


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  14   12  0.60
  15    8  0.40

ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17


Consensus pattern (15 bp):   
ATAAAAATAAAATAA

Found at i:5100 original size:25 final size:25

Alignment explanation


    Indices: 5070--5119  Score: 100
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       5060 ACTCTCGTAT

                                     
       5070 TCATTCAAATATTAATAATAGTTCA
          1 TCATTCAAATATTAATAATAGTTCA

                                     
       5095 TCATTCAAATATTAATAATAGTTCA
          1 TCATTCAAATATTAATAATAGTTCA

       5120 CCATCCATAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   25  1.00

ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40


Consensus pattern (25 bp):   
TCATTCAAATATTAATAATAGTTCA

Found at i:7636 original size:12 final size:12

Alignment explanation


    Indices: 7621--7645  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       7611 TATTTTTATA

                        
       7621 TGTTTTTTATTT
          1 TGTTTTTTATTT

                        
       7633 TGTTTTTTATTT
          1 TGTTTTTTATTT

             
       7645 T
          1 T

       7646 TATTGCTTTG


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:0.08, C:0.00, G:0.08, T:0.84


Consensus pattern (12 bp):   
TGTTTTTTATTT
Done.