Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008532.1 Kokia drynarioides strain JFW-HI SEQ_123209, 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: 12357
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36


Found at i:7531 original size:14 final size:14

Alignment explanation


    Indices: 7509--7542  Score: 50
    Period size: 14  Copynumber: 2.4  Consensus size: 14

       7499 TTTTACATGT

                *    *    
       7509 ATTGCTTCTTTGTA
          1 ATTGATTCTGTGTA

                          
       7523 ATTGATTCTGTGTA
          1 ATTGATTCTGTGTA

                  
       7537 ATTGAT
          1 ATTGAT

       7543 CATATAACAA


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  14   18  1.00

ACGTcount: A:0.21, C:0.09, G:0.18, T:0.53


Consensus pattern (14 bp):   
ATTGATTCTGTGTA

Found at i:8921 original size:12 final size:12

Alignment explanation


    Indices: 8888--8921  Score: 52
    Period size: 11  Copynumber: 2.9  Consensus size: 12

       8878 TATCATTATA

                        
       8888 AATAAACGAGTC
          1 AATAAACGAGTC

                  *     
       8900 -ATAAATGAGTC
          1 AATAAACGAGTC

                       
       8911 AATAAACGAGT
          1 AATAAACGAGT

       8922 TTATAGATAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 2
        0.83            0.09        0.09

Matches are distributed among these distances:
  11   10  0.53
  12    9  0.47

ACGTcount: A:0.50, C:0.12, G:0.18, T:0.21


Consensus pattern (12 bp):   
AATAAACGAGTC

Found at i:12255 original size:3 final size:3

Alignment explanation


    Indices: 12247--12299  Score: 106
    Period size: 3  Copynumber: 17.7  Consensus size: 3

      12237 TTAAATGATT

                                                                           
      12247 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA

                  
      12295 TTA TT
          1 TTA TT

      12300 TACATGTTTA


Statistics
Matches: 50,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   50  1.00

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (3 bp):   
TTA

Done.