Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005893.1 Kokia drynarioides strain JFW-HI SEQ_120232, 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: 9435
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:350 original size:10 final size:10

Alignment explanation


    Indices: 337--361  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

        327 GAAAATTTAT

                      
        337 AAAAAAGAAA
          1 AAAAAAGAAA

                      
        347 AAAAAAGAAA
          1 AAAAAAGAAA

                 
        357 AAAAA
          1 AAAAA

        362 TAGGAAAAAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00


Consensus pattern (10 bp):   
AAAAAAGAAA

Found at i:2046 original size:20 final size:20

Alignment explanation


    Indices: 2002--2046  Score: 54
    Period size: 20  Copynumber: 2.2  Consensus size: 20

       1992 GTTTGTATAA

                 *            * 
       2002 ACATATGTGTATACATGCCT
          1 ACATACGTGTATACATGCAT

            *           *       
       2022 GCATACGTGTATGCATGCAT
          1 ACATACGTGTATACATGCAT

                 
       2042 ACATA
          1 ACATA

       2047 TCCACATATC


Statistics
Matches: 20,  Mismatches: 5, Indels: 0
        0.80            0.20        0.00

Matches are distributed among these distances:
  20   20  1.00

ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Consensus pattern (20 bp):   
ACATACGTGTATACATGCAT

Found at i:5163 original size:29 final size:25

Alignment explanation


    Indices: 5105--5166  Score: 70
    Period size: 25  Copynumber: 2.3  Consensus size: 25

       5095 ATTAAAAAAT

                     *          *    
       5105 ATGAAAAATTAAATAGAGAATTAAA
          1 ATGAAAAATGAAATAGAGAAGTAAA

                                        
       5130 ATGAAAAATGAAATAAAGAGAAGTAATA
          1 ATGAAAAATGAAAT--AGAGAAGTAA-A

                     
       5158 AGTGAAAAA
          1 A-TGAAAAA

       5167 CTGGTTAAAG


Statistics
Matches: 31,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  25   13  0.42
  27    9  0.29
  28    2  0.06
  29    7  0.23

ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19


Consensus pattern (25 bp):   
ATGAAAAATGAAATAGAGAAGTAAA
Done.