Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001054.1 Kokia drynarioides strain JFW-HI SEQ_112299, 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: 5065
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36


Found at i:55 original size:22 final size:22

Alignment explanation


    Indices: 26--74  Score: 64
    Period size: 23  Copynumber: 2.2  Consensus size: 22

         16 CCGAAGTACT

                          *       
         26 TAATAGAGGG-ACATAAAGTGC
          1 TAATAGAGGGCACACAAAGTGC

                            *      
         47 TAATCAGAGGGCACACGAAGTGC
          1 TAAT-AGAGGGCACACAAAGTGC

                 
         70 TAATA
          1 TAATA

         75 ACAAAGGGCA


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  21    4  0.17
  22    7  0.29
  23   13  0.54

ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18


Consensus pattern (22 bp):   
TAATAGAGGGCACACAAAGTGC

Found at i:69 original size:23 final size:23

Alignment explanation


    Indices: 41--129  Score: 78
    Period size: 23  Copynumber: 3.8  Consensus size: 23

         31 GAGGGACATA

                                   
         41 AAGTGCTAATCAGAGGGCACACG
          1 AAGTGCTAATCAGAGGGCACACG

                          *          
         64 AAGTGCTAATAACAAAGGGCACA-G
          1 AAGTGCTAAT--CAGAGGGCACACG

                                     
         88 ATAGTGCTGAA-CAGAGGG--CACG
          1 A-AGTGCT-AATCAGAGGGCACACG

                       *        
        110 AAACGTGCTAAACAGAGGGC
          1 -AA-GTGCTAATCAGAGGGC

        130 GCACTAGTGT


Statistics
Matches: 55,  Mismatches: 2, Indels: 17
        0.74            0.03        0.23

Matches are distributed among these distances:
  21    2  0.04
  22    4  0.07
  23   29  0.53
  24    2  0.04
  25   16  0.29
  26    2  0.04

ACGTcount: A:0.38, C:0.19, G:0.30, T:0.12


Consensus pattern (23 bp):   
AAGTGCTAATCAGAGGGCACACG

Done.