Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01015015.1 Kokia drynarioides strain JFW-HI SEQ_130059, 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: 36170
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33

Warning! 287 characters in sequence are not A, C, G, or T


Found at i:968 original size:17 final size:18

Alignment explanation


    Indices: 936--969  Score: 52
    Period size: 17  Copynumber: 1.9  Consensus size: 18

        926 AATTTCTATC

                              
        936 CAATTTATACCCTAATTT
          1 CAATTTATACCCTAATTT

                     *       
        954 CAATTTA-ATCCTAATT
          1 CAATTTATACCCTAATT

        970 AACTTATTTA


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  17    8  0.53
  18    7  0.47

ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44


Consensus pattern (18 bp):   
CAATTTATACCCTAATTT

Found at i:5903 original size:25 final size:25

Alignment explanation


    Indices: 5875--5926  Score: 104
    Period size: 25  Copynumber: 2.1  Consensus size: 25

       5865 CCTATAGTTC

                                     
       5875 TTGTACATTGTGAAATAAAAAACTA
          1 TTGTACATTGTGAAATAAAAAACTA

                                     
       5900 TTGTACATTGTGAAATAAAAAACTA
          1 TTGTACATTGTGAAATAAAAAACTA

              
       5925 TT
          1 TT

       5927 CATTTAGTAG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   27  1.00

ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35


Consensus pattern (25 bp):   
TTGTACATTGTGAAATAAAAAACTA

Found at i:12742 original size:13 final size:13

Alignment explanation


    Indices: 12724--12750  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

      12714 AACTCTAACG

                         
      12724 AACTTTAAAGAAC
          1 AACTTTAAAGAAC

                         
      12737 AACTTTAAAGAAC
          1 AACTTTAAAGAAC

             
      12750 A
          1 A

      12751 TTCTCGTGCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22


Consensus pattern (13 bp):   
AACTTTAAAGAAC

Found at i:29916 original size:21 final size:21

Alignment explanation


    Indices: 29902--29940  Score: 62
    Period size: 20  Copynumber: 1.9  Consensus size: 21

      29892 TAAAATGAAC

                                 
      29902 ATATATAAAA-ATAAAATATA
          1 ATATATAAAATATAAAATATA

                *              
      29922 ATATCTAAAATATAAAATA
          1 ATATATAAAATATAAAATA

      29941 AGAGTGTATA


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

Matches are distributed among these distances:
  20    9  0.53
  21    8  0.47

ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31


Consensus pattern (21 bp):   
ATATATAAAATATAAAATATA
Done.