Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010772.1 Kokia drynarioides strain JFW-HI SEQ_125735, 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, 943

Length: 1572
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38


Found at i:517 original size:23 final size:23

Alignment explanation


    Indices: 487--595  Score: 111
    Period size: 23  Copynumber: 4.8  Consensus size: 23

        477 GCTGGGGAAA

                                   
        487 CAGTAGGCACACACAGTGC-AAT
          1 CAGTAGGCACACACAGTGCAAAT

                                    
        509 CCAGTAGGCACACACAGTGC-AAT
          1 -CAGTAGGCACACACAGTGCAAAT

                    *    *  *      
        532 CAGTAGGCGCACATAGCGCAAAT
          1 CAGTAGGCACACACAGTGCAAAT

                                      
        555 CAGTA-G-ACACACGAGGTGCGAAA-
          1 CAGTAGGCACACAC-A-GTGC-AAAT

                 *            
        578 CAGTAAGCACACACAGTG
          1 CAGTAGGCACACACAGTG

        596 TTGAACAGTA


Statistics
Matches: 74,  Mismatches: 6, Indels: 12
        0.80            0.07        0.13

Matches are distributed among these distances:
  21    4  0.05
  22   18  0.24
  23   41  0.55
  24    5  0.07
  25    6  0.08

ACGTcount: A:0.37, C:0.27, G:0.25, T:0.12


Consensus pattern (23 bp):   
CAGTAGGCACACACAGTGCAAAT

Found at i:709 original size:24 final size:26

Alignment explanation


    Indices: 671--718  Score: 66
    Period size: 24  Copynumber: 1.9  Consensus size: 26

        661 TCTACATGGG

                                       
        671 CATAATCTCTCATAT-TCATCATTTCT
          1 CATAATCTCTCATATATCA-CATTTCT

                                    
        697 CATAAT-T-TCATATATCACATTT
          1 CATAATCTCTCATATATCACATTT

        719 ATATTTCTCT


Statistics
Matches: 21,  Mismatches: 0, Indels: 4
        0.84            0.00        0.16

Matches are distributed among these distances:
  24   11  0.52
  25    4  0.19
  26    6  0.29

ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46


Consensus pattern (26 bp):   
CATAATCTCTCATATATCACATTTCT
Done.