Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000325.1 Kokia drynarioides strain JFW-HI SEQ_111092, 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: 21863
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32


Found at i:5095 original size:21 final size:21

Alignment explanation


    Indices: 5069--5115  Score: 87
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       5059 TGAAGGTTGA

                                 
       5069 AATTAATAAATCACTTATTGT
          1 AATTAATAAATCACTTATTGT

                                 
       5090 AATTAATAAATCACTTATTGT
          1 AATTAATAAATCACTTATTGT

                  
       5111 -ATTAA
          1 AATTAA

       5116 CACCAAATAG


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  20    5  0.19
  21   21  0.81

ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43


Consensus pattern (21 bp):   
AATTAATAAATCACTTATTGT

Found at i:6540 original size:14 final size:14

Alignment explanation


    Indices: 6521--6551  Score: 53
    Period size: 14  Copynumber: 2.2  Consensus size: 14

       6511 TGCTATCATT

                          
       6521 TTACTATTATGTTA
          1 TTACTATTATGTTA

                    *     
       6535 TTACTATTTTGTTA
          1 TTACTATTATGTTA

               
       6549 TTA
          1 TTA

       6552 ATGATTGAAT


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   16  1.00

ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61


Consensus pattern (14 bp):   
TTACTATTATGTTA

Found at i:11061 original size:153 final size:152

Alignment explanation


    Indices: 10779--11061  Score: 381
    Period size: 153  Copynumber: 1.9  Consensus size: 152

      10769 ATCAACTAAT

                                 *   *         *                             
      10779 TTACTGGCCACGTCACTTGTCTCGTTAGGCCTATAGCGAAAAATATAAATGAGTGATTGATTTGC
          1 TTACTGGCCACGTCACTTGTCCCGTAAGGCCTATAACGAAAAATATAAATGAGTGATTGATTTGC

                                                  *    *    *     *          
      10844 CACTTTTCCATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTGAGTGACTGAATTGAAACT
         66 CACTTTTCCATAACGTTAGTGACTGATTTGTTATTTTTCGAAAATTGAATGACTAAATTGAAACT

                                  
      10909 TTATCTCATCCAACGTGGGAAG
        131 TTATCTCATCCAACGTGGGAAG

                                           *        *     * *             *  
      10931 TTACTTGGCCACGTCACCTT-TCCCGTAAGGTCTATAACGGAAAATGTTAATG-GATGATTGGTT
          1 TTAC-TGGCCACGTCA-CTTGTCCCGTAAGGCCTATAACGAAAAATATAAATGAG-TGATTGATT

              *        *    *           *                                    
      10994 TGTCACTTTTCGATAATGTTAGTGACTGTTTTGTTATTTTTCGAAAATTGAATGACTAAATTGAA
         63 TGCCACTTTTCCATAACGTTAGTGACTGATTTGTTATTTTTCGAAAATTGAATGACTAAATTGAA

               
      11059 ACT
        128 ACT

      11062 AGAGTGTTGA


Statistics
Matches: 112,  Mismatches: 16, Indels: 5
        0.84            0.12        0.04

Matches are distributed among these distances:
 152    5  0.04
 153  104  0.93
 154    3  0.03

ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37


Consensus pattern (152 bp):   
TTACTGGCCACGTCACTTGTCCCGTAAGGCCTATAACGAAAAATATAAATGAGTGATTGATTTGC
CACTTTTCCATAACGTTAGTGACTGATTTGTTATTTTTCGAAAATTGAATGACTAAATTGAAACT
TTATCTCATCCAACGTGGGAAG
Done.