Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004278.1 Kokia drynarioides strain JFW-HI SEQ_117568, 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, 818

Length: 1364
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.35

Warning! 31 characters in sequence are not A, C, G, or T


Found at i:216 original size:34 final size:34

Alignment explanation


    Indices: 169--234  Score: 78
    Period size: 34  Copynumber: 1.9  Consensus size: 34

        159 TATAATTGCA

                  *       *      *            
        169 TTGTCATCACATTTTAATTGTCCTTGCATTTTAT
          1 TTGTCAACACATTTGAATTGTACTTGCATTTTAT

                    *      *      *         
        203 TTGTCAACGCATTTGCATTGTAGTTGCATTTT
          1 TTGTCAACACATTTGAATTGTACTTGCATTTT

        235 CATGAATATT


Statistics
Matches: 26,  Mismatches: 6, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  34   26  1.00

ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50


Consensus pattern (34 bp):   
TTGTCAACACATTTGAATTGTACTTGCATTTTAT

Found at i:861 original size:19 final size:20

Alignment explanation


    Indices: 825--862  Score: 60
    Period size: 19  Copynumber: 1.9  Consensus size: 20

        815 AAAAGAAAAG

                                
        825 AAAGAAAGAAAAATATATAA
          1 AAAGAAAGAAAAATATATAA

                       *       
        845 AAAGAAA-AAATATATATA
          1 AAAGAAAGAAAAATATATA

        863 TAGAATAATA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  19   10  0.59
  20    7  0.41

ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18


Consensus pattern (20 bp):   
AAAGAAAGAAAAATATATAA

Found at i:867 original size:17 final size:17

Alignment explanation


    Indices: 829--860  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

        819 GAAAAGAAAG

                             
        829 AAAG-AAAAATATATAA
          1 AAAGAAAAAATATATAA

                            
        845 AAAGAAAAAATATATA
          1 AAAGAAAAAATATATA

        861 TATAGAATAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  16    4  0.27
  17   11  0.73

ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19


Consensus pattern (17 bp):   
AAAGAAAAAATATATAA
Done.