V5

. ^leBIBI V5 is the latest version of ^leBIBI, the software environment for sequence based phylogenetic identification of prokaryots (Bacteria and Archaea). First version 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.fr OR (see below) on Twitter Follow @bioinfobact BiBi^le How To      Read about Data Bases Classification

Enter the QUERY sequences

SEQs ONLY in FASTA FORMAT !
     >this_is_the_FASTA_FORMAT
     ATCGATGCATGCATGC-ETC.

BIBI's parameters

Sequences Databases ( Currently compilated 02/May/2013)
procaryota_SSU-rDNA-16S_TS_stringent procaryota_SSU-rDNA-16S_lax procaryota_SSU-rDNA-16S_stringent procaryota_SSU-rDNA-16S_superstringent qx_procaryota_LSU-rDNA-23S_TS_stringent qx_procaryota_LSU-rDNA-23S_lax qx_procaryota_LSU-rDNA-23S_stringent rx_Bacteria_rpob_lax rx_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_Bact_gyrB_lax ux_Bact_gyrB_stringent ux_Bacteria_dnaJ_dnaK_lax ux_Bacteria_dnaJ_dnaK_stringent ux_Bacteria_fusA_lax ux_Bacteria_fusA_stringent ux_Bacteria_groel-hsp60-65_lax ux_Bacteria_groel-hsp60-65_stringent ux_Bacteria_groes-cpn10_lax ux_Bacteria_groes-cpn10_stringent ux_Bacteria_recA_lax ux_Bacteria_recA_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 : 203050	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).