Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005196.1 Kokia drynarioides strain JFW-HI SEQ_119061, 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: 15029
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37


Found at i:205 original size:3 final size:3

Alignment explanation


    Indices: 197--223  Score: 54
    Period size: 3  Copynumber: 9.0  Consensus size: 3

        187 TGGTAACCTC

                                               
        197 CTT CTT CTT CTT CTT CTT CTT CTT CTT
          1 CTT CTT CTT CTT CTT CTT CTT CTT CTT

        224 TTTATTTAAC


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   24  1.00

ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67


Consensus pattern (3 bp):   
CTT

Found at i:448 original size:2 final size:2

Alignment explanation


    Indices: 407--434  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

        397 CTGGATCGGC

                                                     
        407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA

        435 CGCACACATA


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:1784 original size:2 final size:2

Alignment explanation


    Indices: 1777--1803  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       1767 TGAATTAATA

                                                    
       1777 AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT A

       1804 ATTGATGCAT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:6115 original size:23 final size:22

Alignment explanation


    Indices: 6085--6127  Score: 68
    Period size: 23  Copynumber: 1.9  Consensus size: 22

       6075 GTAGCTACAC

                          *        
       6085 AAGGGTTAAAATTATAAATTTTA
          1 AAGGGTTAAAA-TACAAATTTTA

                                
       6108 AAGGGTTAAAATACAAATTT
          1 AAGGGTTAAAATACAAATTT

       6128 ATCTTTTATA


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  22    8  0.42
  23   11  0.58

ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35


Consensus pattern (22 bp):   
AAGGGTTAAAATACAAATTTTA
Done.