Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01015138.1 Kokia drynarioides strain JFW-HI SEQ_130182, 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: 9981
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:3101 original size:18 final size:18

Alignment explanation


    Indices: 3080--3138  Score: 50
    Period size: 18  Copynumber: 3.2  Consensus size: 18

       3070 TTTTGGCTTT

                              
       3080 TTTATAATTTTTACAATA
          1 TTTATAATTTTTACAATA

                 *         *    
       3098 TTTAACAATTTCTTATAAT-
          1 TTT-ATAATTT-TTACAATA

                   *           
       3117 TTTATTATTTTTTACAA-A
          1 TTTA-TAATTTTTACAATA

                
       3135 TTTA
          1 TTTA

       3139 AAAAAATAAA


Statistics
Matches: 32,  Mismatches: 5, Indels: 8
        0.71            0.11        0.18

Matches are distributed among these distances:
  18   13  0.41
  19   13  0.41
  20    6  0.19

ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58


Consensus pattern (18 bp):   
TTTATAATTTTTACAATA

Found at i:6888 original size:22 final size:22

Alignment explanation


    Indices: 6863--6912  Score: 77
    Period size: 22  Copynumber: 2.3  Consensus size: 22

       6853 CTTTAGTTTC

                                   
       6863 AAATAGAAAATT-TAAAACTTTA
          1 AAATA-AAAATTGTAAAACTTTA

                                  
       6885 AAATAAAAATTGTAAAACTTT-
          1 AAATAAAAATTGTAAAACTTTA

                   
       6906 AAATAAA
          1 AAATAAA

       6913 TTAAGAATAA


Statistics
Matches: 27,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
  21   13  0.48
  22   14  0.52

ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30


Consensus pattern (22 bp):   
AAATAAAAATTGTAAAACTTTA

Found at i:8127 original size:23 final size:22

Alignment explanation


    Indices: 8112--8163  Score: 68
    Period size: 23  Copynumber: 2.3  Consensus size: 22

       8102 TTGAACTGAT

                              *    
       8112 CATTATATAGTCTTTGTTTACTA
          1 CATTATATAGTCTTTG-TAACTA

                              *    
       8135 CATTATATAGTCTTTGTTTACTA
          1 CATTATATAGTCTTTG-TAACTA

                  
       8158 CATTAT
          1 CATTAT

       8164 TAAAAAAAAA


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   29  1.00

ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52


Consensus pattern (22 bp):   
CATTATATAGTCTTTGTAACTA
Done.