Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000641.1 Kokia drynarioides strain JFW-HI SEQ_111611, 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: 4890
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33


Found at i:1382 original size:21 final size:21

Alignment explanation


    Indices: 1353--1393  Score: 57
    Period size: 20  Copynumber: 2.0  Consensus size: 21

       1343 TCTTTAGAAA

                                  
       1353 ATTTGTTAACAATATATATTAT
          1 ATTTGTTAACAA-ATATATTAT

                          *     
       1375 ATTT-TTAACAAATTTATTA
          1 ATTTGTTAACAAATATATTA

       1394 GAACTTTTGA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  20    7  0.39
  21    7  0.39
  22    4  0.22

ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51


Consensus pattern (21 bp):   
ATTTGTTAACAAATATATTAT

Found at i:4833 original size:11 final size:11

Alignment explanation


    Indices: 4817--4844  Score: 56
    Period size: 11  Copynumber: 2.5  Consensus size: 11

       4807 ATTCTTGTGG

                       
       4817 TGAATTAAAGA
          1 TGAATTAAAGA

                       
       4828 TGAATTAAAGA
          1 TGAATTAAAGA

                  
       4839 TGAATT
          1 TGAATT

       4845 GTAAATATAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   17  1.00

ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32


Consensus pattern (11 bp):   
TGAATTAAAGA

Found at i:4862 original size:2 final size:2

Alignment explanation


    Indices: 4849--4890  Score: 75
    Period size: 2  Copynumber: 21.0  Consensus size: 2

       4839 TGAATTGTAA

                      *                                                   
       4849 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT


Statistics
Matches: 38,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   2   38  1.00

ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Done.