Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008917.1 Kokia drynarioides strain JFW-HI SEQ_123606, 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: 9165
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31


Found at i:5104 original size:21 final size:21

Alignment explanation


    Indices: 5080--5133  Score: 99
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       5070 GTGACAGTTT

                                 
       5080 TACCGAAACAAGAGACTCTTC
          1 TACCGAAACAAGAGACTCTTC

                       *         
       5101 TACCGAAACAAAAGACTCTTC
          1 TACCGAAACAAGAGACTCTTC

                        
       5122 TACCGAAACAAG
          1 TACCGAAACAAG

       5134 TCATGCTTCT


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  21   31  1.00

ACGTcount: A:0.43, C:0.28, G:0.13, T:0.17


Consensus pattern (21 bp):   
TACCGAAACAAGAGACTCTTC

Found at i:5142 original size:21 final size:20

Alignment explanation


    Indices: 5080--5148  Score: 77
    Period size: 21  Copynumber: 3.3  Consensus size: 20

       5070 GTGACAGTTT

                         *       
       5080 TACCGAAACAAGAGACTCTTC
          1 TACCGAAACAAGACA-TCTTC

                                  
       5101 TACCGAAACAAAAGAC-TCTTC
          1 TACCGAAAC--AAGACATCTTC

                        *        
       5122 TACCGAAACAAGTCATGCTTC
          1 TACCGAAACAAGACAT-CTTC

                  
       5143 TACCGA
          1 TACCGA

       5149 TACTAAAAAC


Statistics
Matches: 42,  Mismatches: 2, Indels: 8
        0.81            0.04        0.15

Matches are distributed among these distances:
  19    4  0.10
  20    1  0.02
  21   33  0.79
  23    4  0.10

ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20


Consensus pattern (20 bp):   
TACCGAAACAAGACATCTTC

Found at i:7984 original size:19 final size:19

Alignment explanation


    Indices: 7960--8002  Score: 86
    Period size: 19  Copynumber: 2.3  Consensus size: 19

       7950 GCAAACTCTA

                               
       7960 CCAACGGTAGGTATTTCTC
          1 CCAACGGTAGGTATTTCTC

                               
       7979 CCAACGGTAGGTATTTCTC
          1 CCAACGGTAGGTATTTCTC

                 
       7998 CCAAC
          1 CCAAC

       8003 TACCCTCGAA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   24  1.00

ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28


Consensus pattern (19 bp):   
CCAACGGTAGGTATTTCTC
Done.