Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005822.1 Kokia drynarioides strain JFW-HI SEQ_120106, 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, 616

Length: 1028
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:438 original size:7 final size:7

Alignment explanation


    Indices: 426--462  Score: 51
    Period size: 7  Copynumber: 5.6  Consensus size: 7

        416 TGTTTTTTTA

                   
        426 ATTAATT
          1 ATTAATT

                   
        433 ATTAATT
          1 ATTAATT

             *     
        440 AATAATT
          1 ATTAATT

                   
        447 ATTAA-T
          1 ATTAATT

                   
        453 ATT-ATT
          1 ATTAATT

                
        459 ATTA
          1 ATTA

        463 TTGATATCGA


Statistics
Matches: 26,  Mismatches: 2, Indels: 4
        0.81            0.06        0.12

Matches are distributed among these distances:
   5    1  0.04
   6    8  0.31
   7   17  0.65

ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54


Consensus pattern (7 bp):   
ATTAATT

Found at i:560 original size:18 final size:19

Alignment explanation


    Indices: 539--580  Score: 68
    Period size: 18  Copynumber: 2.3  Consensus size: 19

        529 ATTAGTGTTA

                            *  
        539 TTATTAATATTAA-AATAG
          1 TTATTAATATTAATAAAAG

                               
        557 TTATTAATATTAATAAAAG
          1 TTATTAATATTAATAAAAG

                 
        576 TTATT
          1 TTATT

        581 GGAACGTTTT


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  18   13  0.59
  19    9  0.41

ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48


Consensus pattern (19 bp):   
TTATTAATATTAATAAAAG

Found at i:573 original size:21 final size:21

Alignment explanation


    Indices: 535--574  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        525 GGTCATTAGT

                   *     *       
        535 GTTATTATTAATATTAAAATA
          1 GTTATTAATAATAATAAAATA

                      *        
        556 GTTATTAATATTAATAAAA
          1 GTTATTAATAATAATAAAA

        575 GTTATTGGAA


Statistics
Matches: 16,  Mismatches: 3, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   16  1.00

ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45


Consensus pattern (21 bp):   
GTTATTAATAATAATAAAATA
Done.