Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005198.1 Kokia drynarioides strain JFW-HI SEQ_119063, 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: 3642
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36

Warning! 35 characters in sequence are not A, C, G, or T


Found at i:1551 original size:24 final size:24

Alignment explanation


    Indices: 1524--1582  Score: 66
    Period size: 24  Copynumber: 2.5  Consensus size: 24

       1514 AAAACGTAAA

                       **           
       1524 ATTTAATTTGATTATATAAATTAT
          1 ATTTAATTTGAAAATATAAATTAT

                *                    
       1548 ATTTGATATT-AAAATATAAATTAT
          1 ATTTAAT-TTGAAAATATAAATTAT

                  *    
       1572 ATTTAAGTTGA
          1 ATTTAATTTGA

       1583 GTGTGATAAC


Statistics
Matches: 28,  Mismatches: 5, Indels: 4
        0.76            0.14        0.11

Matches are distributed among these distances:
  23    2  0.07
  24   24  0.86
  25    2  0.07

ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49


Consensus pattern (24 bp):   
ATTTAATTTGAAAATATAAATTAT

Found at i:1565 original size:17 final size:19

Alignment explanation


    Indices: 1529--1565  Score: 51
    Period size: 17  Copynumber: 2.1  Consensus size: 19

       1519 GTAAAATTTA

                           *   
       1529 ATTTGATTATATAAATTAT
          1 ATTTGATTATATAAAATAT

                               
       1548 ATTTGA-TAT-TAAAATAT
          1 ATTTGATTATATAAAATAT

             
       1565 A
          1 A

       1566 AATTATATTT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  17    8  0.47
  18    3  0.18
  19    6  0.35

ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49


Consensus pattern (19 bp):   
ATTTGATTATATAAAATAT

Found at i:2453 original size:22 final size:22

Alignment explanation


    Indices: 2425--2479  Score: 110
    Period size: 22  Copynumber: 2.5  Consensus size: 22

       2415 CAGAGCCAAT

                                  
       2425 GTCGTGACATCACCTCCTCCAC
          1 GTCGTGACATCACCTCCTCCAC

                                  
       2447 GTCGTGACATCACCTCCTCCAC
          1 GTCGTGACATCACCTCCTCCAC

                       
       2469 GTCGTGACATC
          1 GTCGTGACATC

       2480 GCGAAAGAGT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   33  1.00

ACGTcount: A:0.18, C:0.42, G:0.16, T:0.24


Consensus pattern (22 bp):   
GTCGTGACATCACCTCCTCCAC
Done.