. BIBI ^{light edition} V4 is version (V4) of the Python rewritten apparently lightened version of BIBI, the software environment for sequence based identification of prokaryots (Bacteria and Archaea). First version of the webtool was initially written by Devulder et Al. 2003. The main developper is Jean-Pierre Flandrois (database construction and general scripts) with help of Manolo Gouy for tree visualisation programs.
For any question :jean-pierre.flandrois at univ-lyon1.frx OR (see below) on Twitter Follow @bioinfobact
Sending an unknown sequence to BIBI

Enter the QUERY sequence

/!\ Fasta only (first line begins with >, other line(s) = sequence) reverse complement seqs accepted /!\      BiBi^le How To     
Read about Data Bases Classification Be careful ! identification may be sensitive to the sequence position on the gene !
News :Experimental lebibi for batch work : please contact JP Flandrois by mail

BIBI's parameters

GENES in DATABASES are : SSU-rDNA-16S (Bacteria AND Archaea) gyrB, recA, sodA, rpob, tmRNA, tuf, groES, groEL, dnaK & dnaJ, fusA (Bacteria), groel2-hsp65 (Actinobacteria). Databases are called "stringent" or "lax" (depending if the names are nomenclature compliant or not). TS databases contains only TS+complete genome sequences
Sequences Databases ( Currently compilated 09/Nov/2011)
BacteriaArchaea_SSU-rDNA-16S_lax BacteriaArchaea_SSU-rDNA-16S_stringent BacteriaArchaea_TS_SSU-rDNA-16S_stringent Bacteria_groel-hsp60-65_lax Bacteria_groel-hsp60-65_stringent Bacteria_gyrB_lax Bacteria_gyrB_stringent Bacteria_recA_lax Bacteria_recA_stringent Bacteria_rpob_lax Bacteria_rpob_stringent ux_Actinobacteria_TS_groel2-hsp65_stringent ux_Actinobacteria_groel2-hsp65_lax ux_Actinobacteria_groel2-hsp65_stringent ux_Bact_glyA_lax ux_Bact_glyA_stringent ux_Bacteria_dnaJ_dnaK_lax ux_Bacteria_dnaJ_dnaK_stringent ux_Bacteria_fusA_lax ux_Bacteria_fusA_stringent ux_Bacteria_groes-cpn10_lax ux_Bacteria_groes-cpn10_stringent ux_Bacteria_sodA_lax ux_Bacteria_sodA_stringent ux_Bacteria_tmRNA_lax ux_Bacteria_tmRNA_stringent ux_Bacteria_tuf_lax ux_Bacteria_tuf_stringent

Nb seqs to align : 305075	Seq_Id :

Alignment

:FastestFastSlowSlowest

Phylogeny :Not exclude positions with gapsExclude positions with gaps

                                                                                                                  

NEWS on TWITTER

Tests sequences

Tests sequences
Actinobacteria_Groel2-HSP65 Bacteria_SSUrDNA Proteobacteria_GyrB

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NOTE : BIBI ^{light edition} V4 uses python seqclass (JP Flandrois) tree class (JP Flandrois and Emmanuelle Dantony 2005), Sequence colourist (Stephane Vellay and JP Flandrois) parts of T4Bi (JP Flandrois 2005).