Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009931.1 Kokia drynarioides strain JFW-HI SEQ_124672, 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: 14181
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36


Found at i:2517 original size:24 final size:24

Alignment explanation


    Indices: 2468--2517  Score: 66
    Period size: 24  Copynumber: 2.1  Consensus size: 24

       2458 ATATCCTTAA

                               * *  
       2468 TTTTTTTTTAAATTTCAATTAGAC
          1 TTTTTTTTTAAATTTCAATAAAAC

                                     
       2492 TTTTTTTTGTAAATTTC-ATAAAAC
          1 TTTTTTTT-TAAATTTCAATAAAAC

              
       2516 TT
          1 TT

       2518 CTAAAAGATT


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  24   15  0.65
  25    8  0.35

ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58


Consensus pattern (24 bp):   
TTTTTTTTTAAATTTCAATAAAAC

Found at i:5578 original size:29 final size:29

Alignment explanation


    Indices: 5545--5600  Score: 85
    Period size: 29  Copynumber: 1.9  Consensus size: 29

       5535 TTTGATCTTT

                           **            
       5545 ATATTCTTATAATGTTTTTAATTAGTTTA
          1 ATATTCTTATAATGTAATTAATTAGTTTA

                 *                     
       5574 ATATTTTTATAATGTAATTAATTAGTT
          1 ATATTCTTATAATGTAATTAATTAGTT

       5601 CAAATAGTTA


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  29   24  1.00

ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57


Consensus pattern (29 bp):   
ATATTCTTATAATGTAATTAATTAGTTTA

Found at i:13948 original size:2 final size:2

Alignment explanation


    Indices: 13941--13969  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

      13931 CTCACATTGA

                                                       
      13941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

      13970 ATAAATGAAG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Done.