Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000293.1 Kokia drynarioides strain JFW-HI SEQ_111045, 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: 71270
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30

Warning! 19 characters in sequence are not A, C, G, or T


Found at i:31367 original size:28 final size:26

Alignment explanation


    Indices: 31323--31375  Score: 63
    Period size: 28  Copynumber: 2.0  Consensus size: 26

      31313 TCGAACACAA

                                        
      31323 TTTTTTCTTCTTCTTTTTACCAATTTTC
          1 TTTTTTCTTCTTCTTTTT--CAATTTTC

                         *            
      31351 TTTTTTC-TCTTTTTTTTTCAATTTT
          1 TTTTTTCTTC-TTCTTTTTCAATTTT

      31376 TTCAATCAAA


Statistics
Matches: 23,  Mismatches: 1, Indels: 4
        0.82            0.04        0.14

Matches are distributed among these distances:
  26    7  0.30
  27    2  0.09
  28   14  0.61

ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74


Consensus pattern (26 bp):   
TTTTTTCTTCTTCTTTTTCAATTTTC

Found at i:31376 original size:27 final size:28

Alignment explanation


    Indices: 31323--31375  Score: 74
    Period size: 26  Copynumber: 2.0  Consensus size: 28

      31313 TCGAACACAA

                                        
      31323 TTTTTTCTTCTTCTTTTTACCAATTTTC
          1 TTTTTTCTTCTTCTTTTTACCAATTTTC

                              **       
      31351 TTTTTTC-TCTT-TTTTTTTCAATTTT
          1 TTTTTTCTTCTTCTTTTTACCAATTTT

      31376 TTCAATCAAA


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  26   12  0.52
  27    4  0.17
  28    7  0.30

ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74


Consensus pattern (28 bp):   
TTTTTTCTTCTTCTTTTTACCAATTTTC

Found at i:34507 original size:9 final size:9

Alignment explanation


    Indices: 34475--34499  Score: 50
    Period size: 9  Copynumber: 2.8  Consensus size: 9

      34465 TGTGTCATTT

                     
      34475 ATTTTTTCC
          1 ATTTTTTCC

                     
      34484 ATTTTTTCC
          1 ATTTTTTCC

                   
      34493 ATTTTTT
          1 ATTTTTT

      34500 ATATTTTTAA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   16  1.00

ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72


Consensus pattern (9 bp):   
ATTTTTTCC
Done.