Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006976.1 Kokia drynarioides strain JFW-HI SEQ_121582, 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: 7365
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35


Found at i:3005 original size:25 final size:24

Alignment explanation


    Indices: 2977--3023  Score: 60
    Period size: 25  Copynumber: 1.9  Consensus size: 24

       2967 TAAGTTGAGT

                                      
       2977 TTAT-TTTATTAAAAATTAAAATAAA
          1 TTATCTTT-TTAAAAA-TAAAATAAA

                      *           
       3002 TTATCTTTTTTAAAATAAAATA
          1 TTATCTTTTTAAAAATAAAATA

       3024 TTCAAATATG


Statistics
Matches: 20,  Mismatches: 1, Indels: 3
        0.83            0.04        0.12

Matches are distributed among these distances:
  24    7  0.35
  25   10  0.50
  26    3  0.15

ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47


Consensus pattern (24 bp):   
TTATCTTTTTAAAAATAAAATAAA

Found at i:4749 original size:31 final size:31

Alignment explanation


    Indices: 4714--4772  Score: 73
    Period size: 31  Copynumber: 1.9  Consensus size: 31

       4704 CATGATAATT

                 *    *   *                
       4714 TAGTATTTATTTTAGATCTATATTTTTTCTC
          1 TAGTAATTATATTACATCTATATTTTTTCTC

                             * *        
       4745 TAGTAATTATATTACATTTGTATTTTTT
          1 TAGTAATTATATTACATCTATATTTTTT

       4773 AAAGTTAGAA


Statistics
Matches: 23,  Mismatches: 5, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  31   23  1.00

ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61


Consensus pattern (31 bp):   
TAGTAATTATATTACATCTATATTTTTTCTC

Found at i:5915 original size:22 final size:22

Alignment explanation


    Indices: 5867--5918  Score: 79
    Period size: 21  Copynumber: 2.4  Consensus size: 22

       5857 TCTTCGTTCT

                 *             *  
       5867 ATTTTATTTATTTGAATTATTA
          1 ATTTTTTTTATTTGAATTACTA

                                  
       5889 ATTTTTTTTATTT-AATTACTA
          1 ATTTTTTTTATTTGAATTACTA

                     
       5910 ATTTTTTTT
          1 ATTTTTTTT

       5919 GAAATTAAAT


Statistics
Matches: 28,  Mismatches: 2, Indels: 1
        0.90            0.06        0.03

Matches are distributed among these distances:
  21   16  0.57
  22   12  0.43

ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69


Consensus pattern (22 bp):   
ATTTTTTTTATTTGAATTACTA
Done.