Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009106.1 Kokia drynarioides strain JFW-HI SEQ_123807, 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: 8487
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34

Warning! 46 characters in sequence are not A, C, G, or T


Found at i:3451 original size:10 final size:10

Alignment explanation


    Indices: 3436--3492  Score: 55
    Period size: 10  Copynumber: 5.6  Consensus size: 10

       3426 ATAATTAAAA

                      
       3436 TTATAATATT
          1 TTATAATATT

                      
       3446 TTATAATATT
          1 TTATAATATT

                 *     
       3456 TT-TACTATTT
          1 TTATAATA-TT

                       
       3466 TTATATATATT
          1 TTATA-ATATT

                 *     
       3477 TTAGTTAT-TT
          1 TTA-TAATATT

                  
       3487 TTATAA
          1 TTATAA

       3493 GATTGAGTGG


Statistics
Matches: 39,  Mismatches: 4, Indels: 9
        0.75            0.08        0.17

Matches are distributed among these distances:
   9    6  0.15
  10   21  0.54
  11    9  0.23
  12    3  0.08

ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63


Consensus pattern (10 bp):   
TTATAATATT

Found at i:3477 original size:21 final size:20

Alignment explanation


    Indices: 3444--3492  Score: 64
    Period size: 20  Copynumber: 2.4  Consensus size: 20

       3434 AATTATAATA

                                 
       3444 TTTTATAATATTTTTA-CTAT
          1 TTTTATAATA-TTTTAGCTAT

                             *   
       3464 TTTTATATATATTTTAGTTAT
          1 TTTTATA-ATATTTTAGCTAT

                    
       3485 TTTTATAA
          1 TTTTATAA

       3493 GATTGAGTGG


Statistics
Matches: 26,  Mismatches: 1, Indels: 4
        0.84            0.03        0.13

Matches are distributed among these distances:
  20   13  0.50
  21   13  0.50

ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65


Consensus pattern (20 bp):   
TTTTATAATATTTTAGCTAT
Done.