Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006837.1 Kokia drynarioides strain JFW-HI SEQ_121436, 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: 8669
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31


Found at i:2816 original size:23 final size:23

Alignment explanation


    Indices: 2781--2826  Score: 74
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       2771 AGTTTAGCTC

                 *                 
       2781 TCATTTATCGTAATCAACTATTA
          1 TCATTGATCGTAATCAACTATTA

                    *              
       2804 TCATTGATGGTAATCAACTATTA
          1 TCATTGATCGTAATCAACTATTA

       2827 AGCAAGTCGG


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  23   21  1.00

ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41


Consensus pattern (23 bp):   
TCATTGATCGTAATCAACTATTA

Found at i:8560 original size:21 final size:21

Alignment explanation


    Indices: 8536--8589  Score: 99
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       8526 GTGACAGTTT

                                 
       8536 TACCGAAACAAGAGACTCTTC
          1 TACCGAAACAAGAGACTCTTC

                       *         
       8557 TACCGAAACAAAAGACTCTTC
          1 TACCGAAACAAGAGACTCTTC

                        
       8578 TACCGAAACAAG
          1 TACCGAAACAAG

       8590 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:8598 original size:21 final size:20

Alignment explanation


    Indices: 8536--8604  Score: 77
    Period size: 21  Copynumber: 3.3  Consensus size: 20

       8526 GTGACAGTTT

                         *       
       8536 TACCGAAACAAGAGACTCTTC
          1 TACCGAAACAAGACA-TCTTC

                                  
       8557 TACCGAAACAAAAGAC-TCTTC
          1 TACCGAAAC--AAGACATCTTC

                        *        
       8578 TACCGAAACAAGTCATGCTTC
          1 TACCGAAACAAGACAT-CTTC

                  
       8599 TACCGA
          1 TACCGA

       8605 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
Done.