Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006348.1 Kokia drynarioides strain JFW-HI SEQ_120924, 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: 2367
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32


Found at i:283 original size:21 final size:23

Alignment explanation


    Indices: 240--286  Score: 64
    Period size: 21  Copynumber: 2.1  Consensus size: 23

        230 ATGCAACTAC

                                   
        240 AATGCAAATGCACTAACAAATAA
          1 AATGCAAATGCACTAACAAATAA

                                    
        263 AATGC-AATG-AC-AACTAAATAA
          1 AATGCAAATGCACTAAC-AAATAA

               
        284 AAT
          1 AAT

        287 TCATGTAACT


Statistics
Matches: 23,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  20    3  0.13
  21   11  0.48
  22    4  0.17
  23    5  0.22

ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19


Consensus pattern (23 bp):   
AATGCAAATGCACTAACAAATAA

Found at i:1262 original size:17 final size:17

Alignment explanation


    Indices: 1240--1281  Score: 50
    Period size: 16  Copynumber: 2.5  Consensus size: 17

       1230 GTGGGCGCAT

                      **     
       1240 TTTCCTTCTCTTTTTTC
          1 TTTCCTTCTCCCTTTTC

                             
       1257 TTTCCTT-TCCCTTTTC
          1 TTTCCTTCTCCCTTTTC

            *        
       1273 CTTCCTTCT
          1 TTTCCTTCT

       1282 TAGGCATCTC


Statistics
Matches: 21,  Mismatches: 3, Indels: 2
        0.81            0.12        0.08

Matches are distributed among these distances:
  16   13  0.62
  17    8  0.38

ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64


Consensus pattern (17 bp):   
TTTCCTTCTCCCTTTTC
Done.