cd /usr/local/httpd/htdocs/Tcoffee/Tmp;export NO_REMOTE_PDB_DIR=0;export PATH=/home/igs/Tools/T-COFFEE_web/Struct:/usr/local/bin/:$PATH;
 /home/igs/Tools/T-COFFEE_distribution_Version_2.11/bin/t_coffee -in  /usr/local/httpd/htdocs/Tcoffee/Tmp/tcfAA99504_23598.in0  -in Mlalign_id_pair  -in Mslow_pair  -in Msap_pair  -in Mfugue_pair  -evaluate_mode t_coffee_slow -output clustalw_aln score_pdf fasta_aln score_ascii score_html -maxnseq 50 -maxlen 2000 -case lower -seqnos on -outorder input -run_name= /usr/local/httpd/htdocs/Tcoffee/Tmp/tcfAA99504_23598 -check_pdb_status  -cache=no -out_lib= no -quiet= stdout >/usr/local/httpd/htdocs/Tcoffee/Tmp/tcfAA99504_23598.tc_log 2>/usr/local/httpd/htdocs/Tcoffee/Tmp/tcfAA99504_23598.tc_log2 -ulimit 1500;/usr/local/bin/clustalw -infile=/usr/local/httpd/htdocs/Tcoffee/Tmp/tcfAA99504_23598.clustalw_aln -tree -bootstrap=100 -tossgaps ;rm /usr/local/httpd/htdocs/Tcoffee/Tmp/129.111.68.172;