Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008937.1 Kokia drynarioides strain JFW-HI SEQ_123629, 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: 9927
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35


Found at i:5588 original size:18 final size:19

Alignment explanation


    Indices: 5556--5592  Score: 58
    Period size: 18  Copynumber: 2.0  Consensus size: 19

       5546 ACTAAAATCA

                      *        
       5556 TATTTAATTTTTTTGTTAC
          1 TATTTAATTTATTTGTTAC

                               
       5575 TATTT-ATTTATTTGTTAC
          1 TATTTAATTTATTTGTTAC

       5593 GTAAAAATTT


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  18   12  0.71
  19    5  0.29

ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68


Consensus pattern (19 bp):   
TATTTAATTTATTTGTTAC

Found at i:9181 original size:22 final size:22

Alignment explanation


    Indices: 9145--9205  Score: 90
    Period size: 22  Copynumber: 2.8  Consensus size: 22

       9135 CGATTTAAGG

                                  
       9145 AAAAATAAAAG-AAATAGAATT
          1 AAAAATAAAAGAAAATAGAATT

                                  
       9166 AAAAATAAAAGAAAATAGAATT
          1 AAAAATAAAAGAAAATAGAATT

                     *         
       9188 AAAAGA-AATAGAAAATAG
          1 AAAA-ATAAAAGAAAATAG

       9206 GGAAGTCGAA


Statistics
Matches: 37,  Mismatches: 1, Indels: 3
        0.90            0.02        0.07

Matches are distributed among these distances:
  21   11  0.30
  22   25  0.68
  23    1  0.03

ACGTcount: A:0.72, C:0.00, G:0.11, T:0.16


Consensus pattern (22 bp):   
AAAAATAAAAGAAAATAGAATT

Found at i:9196 original size:15 final size:16

Alignment explanation


    Indices: 9171--9200  Score: 53
    Period size: 15  Copynumber: 1.9  Consensus size: 16

       9161 GAATTAAAAA

                            
       9171 TAAAAGAAAATAGAAT
          1 TAAAAGAAAATAGAAT

                           
       9187 TAAAAG-AAATAGAA
          1 TAAAAGAAAATAGAA

       9201 AATAGGGAAG


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    8  0.57
  16    6  0.43

ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17


Consensus pattern (16 bp):   
TAAAAGAAAATAGAAT
Done.