Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005671.1 Kokia drynarioides strain JFW-HI SEQ_119850, 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: 13340
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--41  Score: 82
    Period size: 2  Copynumber: 20.5  Consensus size: 2

                                                                         
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

         42 TTAAAATCTG


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   39  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:4891 original size:19 final size:20

Alignment explanation


    Indices: 4855--4896  Score: 59
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       4845 ATATTATCAA

                *               
       4855 TTTGGTTAATTCTAGTTAAT
          1 TTTGATTAATTCTAGTTAAT

                         *      
       4875 TTTGATTAATTC-GGTTAAT
          1 TTTGATTAATTCTAGTTAAT

               
       4894 TTT
          1 TTT

       4897 AATTTTATTA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  19    9  0.45
  20   11  0.55

ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57


Consensus pattern (20 bp):   
TTTGATTAATTCTAGTTAAT

Found at i:4916 original size:24 final size:25

Alignment explanation


    Indices: 4870--4916  Score: 69
    Period size: 24  Copynumber: 1.9  Consensus size: 25

       4860 TTAATTCTAG

                             **      
       4870 TTAATTTTGATTAATTCGGTTAATT
          1 TTAATTTTGATTAATTCAATTAATT

                                   
       4895 TTAATTTT-ATTAATTCAATTAA
          1 TTAATTTTGATTAATTCAATTAA

       4917 ATTAACATTA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  24   12  0.60
  25    8  0.40

ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55


Consensus pattern (25 bp):   
TTAATTTTGATTAATTCAATTAATT
Done.