Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006966.1 Kokia drynarioides strain JFW-HI SEQ_121572, 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: 12400
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36


Found at i:6882 original size:29 final size:30

Alignment explanation


    Indices: 6850--6915  Score: 89
    Period size: 31  Copynumber: 2.2  Consensus size: 30

       6840 TCAAATTCAC

                                       *  
       6850 GTATAAAATTACAC-AAAATCAAAATTTAT
          1 GTATAAAATTACACAAAAATCAAAATTAAT

                 *                 *       
       6879 GTATATAATTACACATAAAATCATAATTAAT
          1 GTATAAAATTACACA-AAAATCAAAATTAAT

                  
       6910 GTATAA
          1 GTATAA

       6916 TTTTAAGATT


Statistics
Matches: 31,  Mismatches: 4, Indels: 2
        0.84            0.11        0.05

Matches are distributed among these distances:
  29   13  0.42
  31   18  0.58

ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33


Consensus pattern (30 bp):   
GTATAAAATTACACAAAAATCAAAATTAAT

Found at i:6916 original size:29 final size:28

Alignment explanation


    Indices: 6856--6917  Score: 72
    Period size: 29  Copynumber: 2.1  Consensus size: 28

       6846 TCACGTATAA

                                *        
       6856 AATTACACAAAATCAAAATTTATGTATAT
          1 AATTACACAAAATCAAAATTAATG-ATAT

                             *            
       6885 AATTACACATAAAATCATAATTAATG-TAT
          1 AATTACAC--AAAATCAAAATTAATGATAT

                
       6914 AATT
          1 AATT

       6918 TTAAGATTTA


Statistics
Matches: 29,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
  29   15  0.52
  31   14  0.48

ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35


Consensus pattern (28 bp):   
AATTACACAAAATCAAAATTAATGATAT

Found at i:8950 original size:13 final size:13

Alignment explanation


    Indices: 8932--8956  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       8922 AAATAATATA

                         
       8932 TTGTTTGTAAAAT
          1 TTGTTTGTAAAAT

                        
       8945 TTGTTTGTAAAA
          1 TTGTTTGTAAAA

       8957 CAAATAGACC


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52


Consensus pattern (13 bp):   
TTGTTTGTAAAAT
Done.