Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009285.1 Kokia drynarioides strain JFW-HI SEQ_123991, 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: 5753
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31


Found at i:805 original size:23 final size:23

Alignment explanation


    Indices: 738--798  Score: 104
    Period size: 23  Copynumber: 2.7  Consensus size: 23

        728 CCAATTTACA

                       *           
        738 CATAAATCACAATAATATTTAAG
          1 CATAAATCACATTAATATTTAAG

            *                      
        761 TATAAATCACATTAATATTTAAG
          1 CATAAATCACATTAATATTTAAG

                           
        784 CATAAATCACATTAA
          1 CATAAATCACATTAA

        799 CCTTTAATCA


Statistics
Matches: 35,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  23   35  1.00

ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33


Consensus pattern (23 bp):   
CATAAATCACATTAATATTTAAG

Found at i:810 original size:23 final size:23

Alignment explanation


    Indices: 738--810  Score: 94
    Period size: 23  Copynumber: 3.2  Consensus size: 23

        728 CCAATTTACA

                       *            
        738 CATAAATCACAATAATATTTAAGT
          1 CATAAATCACATTAATATTTAA-T

                                  *
        762 -ATAAATCACATTAATATTTAAG
          1 CATAAATCACATTAATATTTAAT

                           **      
        784 CATAAATCACATTAACCTTTAAT
          1 CATAAATCACATTAATATTTAAT

                
        807 CATA
          1 CATA

        811 TAACGCATGA


Statistics
Matches: 43,  Mismatches: 5, Indels: 3
        0.84            0.10        0.06

Matches are distributed among these distances:
  23   43  1.00

ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34


Consensus pattern (23 bp):   
CATAAATCACATTAATATTTAAT

Found at i:4208 original size:23 final size:23

Alignment explanation


    Indices: 4177--4249  Score: 92
    Period size: 23  Copynumber: 3.2  Consensus size: 23

       4167 CATAAATACA

                     *             
       4177 CATAAATCATAGTAATATTTAAG
          1 CATAAATCACAGTAATATTTAAG

            *          *           
       4200 TATAAATCACATTAATATTTAAG
          1 CATAAATCACAGTAATATTTAAG

                       *   **      
       4223 CATAAATCACATTAACCTTTAAG
          1 CATAAATCACAGTAATATTTAAG

                
       4246 CATA
          1 CATA

       4250 TAACGCATGA


Statistics
Matches: 44,  Mismatches: 6, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  23   44  1.00

ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34


Consensus pattern (23 bp):   
CATAAATCACAGTAATATTTAAG
Done.