Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003827.1 Kokia drynarioides strain JFW-HI SEQ_116830, 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: 12347
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32


Found at i:8507 original size:21 final size:23

Alignment explanation


    Indices: 8481--8525  Score: 58
    Period size: 24  Copynumber: 2.0  Consensus size: 23

       8471 TCAATTCATC

                            *      
       8481 TTTTAT-TA-ATTTGCTCTGACA
          1 TTTTATATACATTTGCACTGACA

                                    
       8502 TTTTATAGTACATTTGCACTGACA
          1 TTTTATA-TACATTTGCACTGACA

       8526 GATTTTACTC


Statistics
Matches: 20,  Mismatches: 1, Indels: 3
        0.83            0.04        0.12

Matches are distributed among these distances:
  21    6  0.30
  23    2  0.10
  24   12  0.60

ACGTcount: A:0.27, C:0.16, G:0.11, T:0.47


Consensus pattern (23 bp):   
TTTTATATACATTTGCACTGACA

Found at i:9201 original size:54 final size:54

Alignment explanation


    Indices: 9106--9208  Score: 140
    Period size: 54  Copynumber: 1.9  Consensus size: 54

       9096 TAAACAGGCT

                                                                  
       9106 AGCACACGGTCTAAGACACGACTGTGTGACCTAAGTCAGTGAGTTACACGAGTA
          1 AGCACACGGTCTAAGACACGACTGTGTGACCTAAGTCAGTGAGTTACACGAGTA

                         *                         *            
       9160 AGCACACGAG-CTGAGACACGAGC-GTGTGGACC-AAGTTAGTGAGTTACAC
          1 AGCACACG-GTCTAAGACACGA-CTGTGT-GACCTAAGTCAGTGAGTTACAC

       9209 AGGCGGGTAC


Statistics
Matches: 44,  Mismatches: 2, Indels: 6
        0.85            0.04        0.12

Matches are distributed among these distances:
  54   38  0.86
  55    6  0.14

ACGTcount: A:0.31, C:0.22, G:0.28, T:0.18


Consensus pattern (54 bp):   
AGCACACGGTCTAAGACACGACTGTGTGACCTAAGTCAGTGAGTTACACGAGTA
Done.