R I F L E

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Rapid Identification by Fragment Length Evaluation - Results

Processing log

No input errors were found.

Estimated processing time in minutes:1.5

Parameters

Databases

RDP unaligned sequences, June 1995

Primer

R1n-U2

Organisms in the database

For each database, you may retrieve a list of organisms contained in it:

RDP

Experimental artefacts

20 base pairs before the forward primer

20 base pairs after the reverse primer

Laboratory resolution

Fragments shorter than 80 base pairs will be ignored in the theoretical patterns. Subsequent theoretical fragments whose length difference is smaller than 4 % of the length of the shorter fragment will be considered as one fragment.

Filtering of results

Only organisms with an edit distance of at most 200 base pairs to the laboratory pattern will be displayed. Only the 20 organisms with the smallest edit distances will be displayed.

Organisms for which restriction pattern data is missing for some of the selected enzymes are skipped.

Independent results

Restriction pattern 0.0: L8 [477 346 207 86], digested with HpaII

Accession Number       Distance   Variants Strain
M58818 (Release 77.0         59          4 Lactobacillus fructivorans.
L10942                       72          1 str. agg8.
M58820 (Release 77.0         78          2 Lactobacillus gasseri.
M99704                       78          1 Lactobacillus acidophilus subsp. johnsonii str. BMF 6Lb6.
U02521                       80          1 Ehrlichia sp.
U03775                       81          1 Ehrlichia bovis.
M26634 (Release 77.0         81          4 Desulfuromonas acetoxidans.
M58744 (Release 77.0         82          2 Gardnerella vaginalis.
L06082                       88          2 Pasteurella sp. str. Bisgaard Taxon 7.
M75039                       88          4 Haemophilus actinomycetemcomitans.
M75081                       88          4 Haemophilus parainfluenzae.
L06083                       88          2 Pasteurella sp. str. Bisgaard Taxon 8.
M75037                       88          2 Haemophilus actinomycetemcomitans.
M75035                       88          2 Haemophilus actinomycetemcomitans str. FDC Y4.
M75036                       88          4 Haemophilus actinomycetemcomitans.
M75038                       88          4 Haemophilus actinomycetemcomitans.
M75054                       91          2 Pasteurella anatis str. F149.
M75065                       92          4 Haemophilus parasuis.
X79412                       94          1 D.bakii 16S rDNA.
M75083                       94          4 Pasteurella pneumotropica.


Restriction pattern 1.0: L8 [490 393 187 108], digested with HinfI

Accession Number       Distance   Variants Strain
M96399                       85          4 Nitrosomonas europaea str. C-31.
L10942                       96          1 str. agg8.
M22518 (Release 77.0         99          1 Burkholderia cepacia.
D14153                      101          1 Peptostreptococcus prevotii.
M35017                      106          4 Actinobacillus lignieresii str. CM 2 (P.H. Martin).
L35521                      114          1 Alvinella pompejana epibiont (clone APG44b) 16S ribosomal RNA (16S
L04322                      117          2 Campylobacter concisus str. Tanner 484.
L14632                      118          1 Campylobacter sp.
L35522                      118          1 Alvinella pompejana epibiont (clone APG56B) 16S ribosomal RNA (16S
L35523                      119          1 Alvinella pompejana epibiont (clone APG5A) 16S ribosmal RNA (16S
L35520                      119          1 Alvinella pompejana epibiont (clone APB13b) 16S ribosomal RNA (16S
No information              119          1 Pirellula marina.
No information              123          2 Desulfosarcina variabilis str. 3 be 13, Montpellier.
X72768                      123          1 Desulfurella acetivorans.
U00679                      124          1 Helicobacter pylori str. 85D08.
No information              124          2 Neisseria denitrificans.
M26632 (Release 77.0        124          2 Desulfosarcina variabilis str. 3 be 13, Montpellier.
U01330                      124          1 Helicobacter pylori.
M35020 (Release 77.0        124          2 Neisseria denitrificans str. M37.
U01328                      124          1 Helicobacter pylori str. isolate MC123.


Combined results

Pattern group 0: L8

Accession Number        Average      HpaII      HinfI Strain
L10942                       84         72         96 str. agg8.
M35017                      110        114        106 Actinobacillus lignieresii str. CM 2 (P.H. Martin).
M75083                      123         94        152 Pasteurella pneumotropica.
U02521                      124         80        168 Ehrlichia sp.
U03775                      124         81        167 Ehrlichia bovis.
M75065                      125         92        158 Haemophilus parasuis.
No information              130        142        119 Pirellula marina.
X67022                      132        101        164 Marinobacter hydrocarbonoclasticus str. SP.17.
D21229                      135        113        157 Vibrio sp. str. DB5101.
X72768                      138        153        123 Desulfurella acetivorans.
M59154 (Release 77.0        140        108        172 Pseudomonas mendocina.
-                           140        109        171 Pirellula marina.
No information              144        163        125 Helicobacter pylori.
L04320                      144        110        178 Bacteroides gracilis.
M88140                      145        163        127 Helicobacter pametensis str. Seymour B12.
M22518 (Release 77.0        145        191         99 Burkholderia cepacia.
X68474                      145        142        148 str. MC 24.
M37643                      151        170        132 Helicobacter felis str. DS3.
M34127 (Release 77.0        153        148        159 Rhodomicrobium vannielii str. EY33.
D13722                      154        163        145 Sphingomonas adhaesiva.

Thank you for using the RIFLE system!

Please call us again at: http://bibiserv.techfak.uni-bielefeld.de/RIFLE/

Henning Hermjakob, bibi-help(at)techfak.uni-bielefeld.de, 1996-09-01