Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003889.1 Kokia drynarioides strain JFW-HI SEQ_116938, 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, 711

Length: 1186
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38


Found at i:53 original size:22 final size:22

Alignment explanation


    Indices: 2--81  Score: 106
    Period size: 23  Copynumber: 3.5  Consensus size: 22

          1 A

                 *                
          2 CAGTAAGCACACACAGTGCAAT
          1 CAGTAGGCACACACAGTGCAAT

                                   
         24 CCAGTAGGCACACACAGTGCAAT
          1 -CAGTAGGCACACACAGTGCAAT

                    *    *  *      
         47 CAGTAGGCGCACATAGCGCAAAT
          1 CAGTAGGCACACACAGTGC-AAT

                        
         70 CAGTAGGCACAC
          1 CAGTAGGCACAC

         82 GAATCAGTAA


Statistics
Matches: 51,  Mismatches: 5, Indels: 2
        0.88            0.09        0.03

Matches are distributed among these distances:
  22   16  0.31
  23   35  0.69

ACGTcount: A:0.36, C:0.29, G:0.23, T:0.12


Consensus pattern (22 bp):   
CAGTAGGCACACACAGTGCAAT

Found at i:88 original size:16 final size:16

Alignment explanation


    Indices: 67--100  Score: 59
    Period size: 16  Copynumber: 2.1  Consensus size: 16

         57 ACATAGCGCA

                    *       
         67 AATCAGTAGGCACACG
          1 AATCAGTAAGCACACG

                            
         83 AATCAGTAAGCACACG
          1 AATCAGTAAGCACACG

              
         99 AA
          1 AA

        101 GTGCGAAACA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.44, C:0.24, G:0.21, T:0.12


Consensus pattern (16 bp):   
AATCAGTAAGCACACG

Found at i:241 original size:26 final size:24

Alignment explanation


    Indices: 202--249  Score: 60
    Period size: 26  Copynumber: 1.9  Consensus size: 24

        192 TCTACATGGG

                     *                
        202 CATAATCTCTTATATTCATCATTTCT
          1 CATAATCTCATATA-TCA-CATTTCT

                  *               
        228 CATAATTTCATATATCACATTT
          1 CATAATCTCATATATCACATTT

        250 ACATTTCTCT


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  24    5  0.25
  25    3  0.15
  26   12  0.60

ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48


Consensus pattern (24 bp):   
CATAATCTCATATATCACATTTCT
Done.