--- EXPERIMENT NOTES




 --- EXPERIMENT PROPERTIES

#Mon Dec 05 10:09:39 WET 2016
codeml.models=0 1 2 3 7 8
mrbayes.mpich=
mrbayes.ngen=1000000
tcoffee.alignMethod=CLUSTALW2
tcoffee.params=
tcoffee.maxSeqs=0
codeml.bin=codeml
mrbayes.tburnin=2500
codeml.dir=
input.sequences=
mrbayes.pburnin=2500
mrbayes.bin=mb_adops
tcoffee.bin=t_coffee_ADOPS
mrbayes.dir=/usr/bin/
tcoffee.dir=
tcoffee.minScore=3
input.fasta=/opt/ADOPS/373/RPA2-PB/input.fasta
input.names=
mrbayes.params=
codeml.params=



 --- PSRF SUMMARY

      Estimated marginal likelihoods for runs sampled in files
"/opt/ADOPS/373/RPA2-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/373/RPA2-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run2.p":
(Use the harmonic mean for Bayes factor comparisons of models)

(Values are saved to the file /opt/ADOPS/373/RPA2-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.lstat)

Run   Arithmetic mean   Harmonic mean
--------------------------------------
1      -2809.67         -2824.58
2      -2809.37         -2826.18
--------------------------------------
TOTAL    -2809.51         -2825.67
--------------------------------------


Model parameter summaries over the runs sampled in files
"/opt/ADOPS/373/RPA2-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/373/RPA2-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run2.p":
Summaries are based on a total of 3002 samples from 2 runs.
Each run produced 2001 samples of which 1501 samples were included.
Parameter summaries saved to file "/opt/ADOPS/373/RPA2-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.pstat".

95% HPD Interval
--------------------
Parameter         Mean      Variance     Lower       Upper       Median    min ESS*  avg ESS    PSRF+
------------------------------------------------------------------------------------------------------
TL{all}         1.210242    0.010869    1.009106    1.407339    1.205791   1311.16   1406.08    1.000
r(A<->C){all}   0.110616    0.000405    0.070400    0.149331    0.109666    991.31   1028.22    1.000
r(A<->G){all}   0.327096    0.001514    0.254182    0.403331    0.325862    864.55    868.59    1.000
r(A<->T){all}   0.072923    0.000443    0.033245    0.113853    0.071470   1033.54   1061.45    1.000
r(C<->G){all}   0.078483    0.000240    0.050163    0.109557    0.077471    935.11   1110.24    1.004
r(C<->T){all}   0.343127    0.001369    0.267265    0.412214    0.342439    757.30    770.42    1.000
r(G<->T){all}   0.067755    0.000287    0.033964    0.099328    0.066327   1135.62   1171.84    1.000
pi(A){all}      0.234227    0.000219    0.206214    0.262763    0.233738    875.66    915.42    1.000
pi(C){all}      0.270287    0.000213    0.242988    0.300271    0.270243   1053.18   1145.74    1.000
pi(G){all}      0.281226    0.000236    0.251852    0.311382    0.281145    991.39   1054.90    1.000
pi(T){all}      0.214259    0.000185    0.189702    0.242241    0.214067   1018.40   1198.50    1.000
alpha{1,2}      0.129480    0.000229    0.101149    0.159989    0.128659   1501.00   1501.00    1.000
alpha{3}        3.483294    0.922106    1.806939    5.396241    3.358208   1352.04   1426.52    1.000
pinvar{all}     0.247805    0.002633    0.148348    0.347340    0.250910   1289.18   1370.63    1.000
------------------------------------------------------------------------------------------------------
* Convergence diagnostic (ESS = Estimated Sample Size); min and avg values
correspond to minimal and average ESS among runs.
ESS value below 100 may indicate that the parameter is undersampled.
+ Convergence diagnostic (PSRF = Potential Scale Reduction Factor; Gelman
and Rubin, 1992) should approach 1.0 as runs converge.


Setting sumt conformat to Simple



 --- CODEML SUMMARY

Model 1: NearlyNeutral	-2625.435695
Model 2: PositiveSelection	-2625.435695
Model 0: one-ratio	-2640.459092
Model 3: discrete	-2616.379039
Model 7: beta	-2617.179514
Model 8: beta&w>1	-2616.826104


Model 0 vs 1	30.046793999999863

Model 2 vs 1	0.0

Model 8 vs 7	0.7068199999994249
>C1
MNDSFGDFNATQTAPTGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
AMACVVAIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
SKGGAGAGAGASSGSGSIADFTASQSSAIVSGLEPKQQAVFQAIKSNVSE
EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM
>C2
MNDSFGDFNATQTAPAGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
AMACVVAIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
SKGGAGAGAGASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
EGISRKQLKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM
>C3
MNDSFGDFNATQTAPAGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
AMACVVAIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
SKGGAGAGAGASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM
>C4
MNDSFGDFNATQTAPSGAASSQKGEGIAPLVVKQIVDAPEGNIEMFGMQY
AMACVVAIVRNIETSSTKITYALEDHSGRIDAHYWLEEGDALKAPEVMIN
NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
SKGGAGAGASSGSGSIADFTASQSSAIVSGLEPKQQAVFQAIKINVSEEG
ISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
>C5
MNDSFGDFNATQTAPAGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
AMACVVAIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEALNARYRAEDYQ
SKGGAGGGAGASSGSGPIADFTASQSSAIVSGLEPKQQAVFQAIKSNVSE
EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM
>C6
MNDSFGDFNATQTAPTGAASNQKGEGIVPLVIKQVVDAPEGNIELFGMQY
AMVCVVGIVRNVETSSTKITYTVEDHSGRIDAHYWLEEGDALKAPEVMVN
NYVKVYGTTRSQGGQKTLMVFKLLPVLDPNEVCTHLLEVLNARYRAEDYK
NKGGSGAVASSGSGSIADFTTSQSSAIVSGLDPKQQAVFQAIKSNVSEEG
ISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
>C7
MNDSFGDFNATQTAPAGAASNQKGEGIVPLVIKQIVDAPEGNIELFGMQY
AMACVVGIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
NYVKVYGTTRSQGGQKTLMVFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
NKGGSGAVASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSEEG
ISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
>C8
MNDSFGDFNATQTAPTGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
AMACVVGIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
NYVKVYGTTRSQAGQKTLMVFKLLPILDPNEVCTHLLEVLNARYRAEDYQ
SKGGSGAGASSGGGSISDFTASQSTAIVSGLDPKQQAVFQAIKSNVSEEG
ISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
>C9
MNDSFGDFNATQTATAGAASNQKGEGIVPLVIKQIVDAPEGNIELFGMQY
AMACVVAIVRNIETSSTKITYTLEDHSGRMDAHYWLEEGDALKAPEVMLN
NYVKVYGTTRSQGGQKTLMVFKLLPVLDPNEVCTHLLEALNARYRAEDYQ
NKGGSSGVAPSGTGSISDFTASQSSAIVSGLDPKQQAVFQAIKSNVSEEG
ISRKELKAKFSHISDSELTNIVDFMISEGHIYSSIDADHFICTMoo
>C10
MNDSFGDFNAIQTATAGAASNQKGEGIVPLVIKQIVDAPEGNIELFGMQY
AMACVVAIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMLN
NYVKVYGTTRSQAGQKTLMVFKLLPILDPNEVCTHLLEALNARYRAEDYQ
NKGGSSAVAPSGSGSISDFTASQSSAIVSGLDPKQQAVFQAIKSNVSEEG
ISRKELKAKFSHISDSELTNIVDFMISEGHIYSSIDADHFICTMoo
>C11
MNDSFGDFNATQTAPTGAASNQKGEGIVPLVVKQIVDAPEGNIEMFGMQY
GMACVVAIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMLN
NYVKVYGTTRSQAGQKTLMVFKLLPVLDPNELCTHLLEVLNARYRAEDYQ
NKGGSGAVASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSEEG
ISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
CLUSTAL FORMAT for T-COFFEE Version_10.00.r1613 [http://www.tcoffee.org] [MODE:  ], CPU=0.00 sec, SCORE=100, Nseq=11, Len=248 

C1              MNDSFGDFNATQTAPTGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
C2              MNDSFGDFNATQTAPAGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
C3              MNDSFGDFNATQTAPAGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
C4              MNDSFGDFNATQTAPSGAASSQKGEGIAPLVVKQIVDAPEGNIEMFGMQY
C5              MNDSFGDFNATQTAPAGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
C6              MNDSFGDFNATQTAPTGAASNQKGEGIVPLVIKQVVDAPEGNIELFGMQY
C7              MNDSFGDFNATQTAPAGAASNQKGEGIVPLVIKQIVDAPEGNIELFGMQY
C8              MNDSFGDFNATQTAPTGAASNQKGEGIVPLVVKQIVDAPEGNIELFGMQY
C9              MNDSFGDFNATQTATAGAASNQKGEGIVPLVIKQIVDAPEGNIELFGMQY
C10             MNDSFGDFNAIQTATAGAASNQKGEGIVPLVIKQIVDAPEGNIELFGMQY
C11             MNDSFGDFNATQTAPTGAASNQKGEGIVPLVVKQIVDAPEGNIEMFGMQY
                ********** ***.:****.******.***:**:*********:*****

C1              AMACVVAIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
C2              AMACVVAIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
C3              AMACVVAIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
C4              AMACVVAIVRNIETSSTKITYALEDHSGRIDAHYWLEEGDALKAPEVMIN
C5              AMACVVAIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
C6              AMVCVVGIVRNVETSSTKITYTVEDHSGRIDAHYWLEEGDALKAPEVMVN
C7              AMACVVGIVRNVETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
C8              AMACVVGIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMVN
C9              AMACVVAIVRNIETSSTKITYTLEDHSGRMDAHYWLEEGDALKAPEVMLN
C10             AMACVVAIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMLN
C11             GMACVVAIVRNIETSSTKITYTLEDHSGRIDAHYWLEEGDALKAPEVMLN
                .*.***.****:*********::******:******************:*

C1              NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
C2              NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
C3              NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
C4              NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
C5              NYVKVYGTTRSQGGSKTLMIFKLLPVLDPNEVCTHLLEALNARYRAEDYQ
C6              NYVKVYGTTRSQGGQKTLMVFKLLPVLDPNEVCTHLLEVLNARYRAEDYK
C7              NYVKVYGTTRSQGGQKTLMVFKLLPVLDPNEVCTHLLEVLNARYRAEDYQ
C8              NYVKVYGTTRSQAGQKTLMVFKLLPILDPNEVCTHLLEVLNARYRAEDYQ
C9              NYVKVYGTTRSQGGQKTLMVFKLLPVLDPNEVCTHLLEALNARYRAEDYQ
C10             NYVKVYGTTRSQAGQKTLMVFKLLPILDPNEVCTHLLEALNARYRAEDYQ
C11             NYVKVYGTTRSQAGQKTLMVFKLLPVLDPNELCTHLLEVLNARYRAEDYQ
                ************.*.****:*****:*****:******.**********:

C1              SKGGAGAGAGASSGSGSIADFTASQSSAIVSGLEPKQQAVFQAIKSNVSE
C2              SKGGAGAGAGASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
C3              SKGGAGAGAGASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
C4              SKGGAG--AGASSGSGSIADFTASQSSAIVSGLEPKQQAVFQAIKINVSE
C5              SKGGAGGGAGASSGSGPIADFTASQSSAIVSGLEPKQQAVFQAIKSNVSE
C6              NKGGSG--AVASSGSGSIADFTTSQSSAIVSGLDPKQQAVFQAIKSNVSE
C7              NKGGSG--AVASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
C8              SKGGSG--AGASSGGGSISDFTASQSTAIVSGLDPKQQAVFQAIKSNVSE
C9              NKGGSS--GVAPSGTGSISDFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
C10             NKGGSS--AVAPSGSGSISDFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
C11             NKGGSG--AVASSGSGSIADFTASQSSAIVSGLDPKQQAVFQAIKSNVSE
                .***:.  . *.** *.*:***:***:******:*********** ****

C1              EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM--
C2              EGISRKQLKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM--
C3              EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM--
C4              EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
C5              EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTM--
C6              EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
C7              EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
C8              EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
C9              EGISRKELKAKFSHISDSELTNIVDFMISEGHIYSSIDADHFICTMoo
C10             EGISRKELKAKFSHISDSELTNIVDFMISEGHIYSSIDADHFICTMoo
C11             EGISRKELKAKFSHISDSELTNILDFMISEGHIYSSIDADHFICTMoo
                ******:****************:**********************  




PROGRAM: T-COFFEE Version_10.00.r1613 (2013-10-22 15:49:04 - Revision 1613 - Build 427)
-full_log      	S	[0] 
-genepred_score	S	[0] 	nsd
-run_name      	S	[0] 
-mem_mode      	S	[0] 	mem
-extend        	D	[1] 	1 
-extend_mode   	S	[0] 	very_fast_triplet
-max_n_pair    	D	[0] 	10 
-seq_name_for_quadruplet	S	[0] 	all
-compact       	S	[0] 	default
-clean         	S	[0] 	no
-do_self       	FL	[0] 	0
-do_normalise  	D	[0] 	1000 
-template_file 	S	[0] 
-setenv        	S	[0] 	0
-template_mode 	S	[0] 
-flip          	D	[0] 	0 
-remove_template_file	D	[0] 	0 
-profile_template_file	S	[0] 
-in            	S	[0] 
-seq           	S	[0] 
-aln           	S	[0] 
-method_limits 	S	[0] 
-method        	S	[0] 
-lib           	S	[0] 
-profile       	S	[0] 
-profile1      	S	[0] 
-profile2      	S	[0] 
-pdb           	S	[0] 
-relax_lib     	D	[0] 	1 
-filter_lib    	D	[0] 	0 
-shrink_lib    	D	[0] 	0 
-out_lib       	W_F	[0] 	no
-out_lib_mode  	S	[0] 	primary
-lib_only      	D	[0] 	0 
-outseqweight  	W_F	[0] 	no
-dpa           	FL	[0] 	0
-seq_source    	S	[0] 	ANY
-cosmetic_penalty	D	[0] 	0 
-gapopen       	D	[0] 	0 
-gapext        	D	[0] 	0 
-fgapopen      	D	[0] 	0 
-fgapext       	D	[0] 	0 
-nomatch       	D	[0] 	0 
-newtree       	W_F	[0] 	default
-tree          	W_F	[0] 	NO
-usetree       	R_F	[0] 
-tree_mode     	S	[0] 	nj
-distance_matrix_mode	S	[0] 	ktup
-distance_matrix_sim_mode	S	[0] 	idmat_sim1
-quicktree     	FL	[0] 	0
-outfile       	W_F	[0] 	default
-maximise      	FL	[1] 	1
-output        	S	[1] 	score_ascii	html	score_ascii
-len           	D	[0] 	0 
-infile        	R_F	[1] 	/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
-matrix        	S	[0] 	default
-tg_mode       	D	[0] 	1 
-profile_mode  	S	[0] 	cw_profile_profile
-profile_comparison	S	[0] 	profile
-dp_mode       	S	[0] 	linked_pair_wise
-ktuple        	D	[0] 	1 
-ndiag         	D	[0] 	0 
-diag_threshold	D	[0] 	0 
-diag_mode     	D	[0] 	0 
-sim_matrix    	S	[0] 	vasiliky
-transform     	S	[0] 
-extend_seq    	FL	[0] 	0
-outorder      	S	[0] 	input
-inorder       	S	[0] 	aligned
-seqnos        	S	[0] 	off
-case          	S	[0] 	keep
-cpu           	D	[0] 	0 
-maxnseq       	D	[0] 	1000 
-maxlen        	D	[0] 	-1 
-sample_dp     	D	[0] 	0 
-weight        	S	[0] 	default
-seq_weight    	S	[0] 	no
-align         	FL	[1] 	1
-mocca         	FL	[0] 	0
-domain        	FL	[0] 	0
-start         	D	[0] 	0 
-len           	D	[0] 	0 
-scale         	D	[0] 	0 
-mocca_interactive	FL	[0] 	0
-method_evaluate_mode	S	[0] 	default
-evaluate_mode 	S	[1] 	t_coffee_fast
-get_type      	FL	[0] 	0
-clean_aln     	D	[0] 	0 
-clean_threshold	D	[1] 	1 
-clean_iteration	D	[1] 	1 
-clean_evaluate_mode	S	[0] 	t_coffee_fast
-extend_matrix 	FL	[0] 	0
-prot_min_sim  	D	[40] 	40 
-prot_max_sim  	D	[90] 	90 
-prot_min_cov  	D	[40] 	40 
-pdb_type      	S	[0] 	d
-pdb_min_sim   	D	[35] 	35 
-pdb_max_sim   	D	[100] 	100 
-pdb_min_cov   	D	[50] 	50 
-pdb_blast_server	W_F	[0] 	EBI
-blast         	W_F	[0] 
-blast_server  	W_F	[0] 	EBI
-pdb_db        	W_F	[0] 	pdb
-protein_db    	W_F	[0] 	uniprot
-method_log    	W_F	[0] 	no
-struc_to_use  	S	[0] 
-cache         	W_F	[0] 	use
-align_pdb_param_file	W_F	[0] 	no
-align_pdb_hasch_mode	W_F	[0] 	hasch_ca_trace_bubble
-external_aligner	S	[0] 	NO
-msa_mode      	S	[0] 	tree
-master        	S	[0] 	no
-blast_nseq    	D	[0] 	0 
-lalign_n_top  	D	[0] 	10 
-iterate       	D	[1] 	0 
-trim          	D	[0] 	0 
-split         	D	[0] 	0 
-trimfile      	S	[0] 	default
-split         	D	[0] 	0 
-split_nseq_thres	D	[0] 	0 
-split_score_thres	D	[0] 	0 
-check_pdb_status	D	[0] 	0 
-clean_seq_name	D	[0] 	0 
-seq_to_keep   	S	[0] 
-dpa_master_aln	S	[0] 
-dpa_maxnseq   	D	[0] 	0 
-dpa_min_score1	D	[0] 
-dpa_min_score2	D	[0] 
-dpa_keep_tmpfile	FL	[0] 	0
-dpa_debug     	D	[0] 	0 
-multi_core    	S	[0] 	templates_jobs_relax_msa_evaluate
-n_core        	D	[0] 	0 
-max_n_proc    	D	[0] 	0 
-lib_list      	S	[0] 
-prune_lib_mode	S	[0] 	5
-tip           	S	[0] 	none
-rna_lib       	S	[0] 
-no_warning    	D	[0] 	0 
-run_local_script	D	[0] 	0 
-plugins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:
gins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln  Format clustal_aln
	Input File (M) proba_pair 

Identify Master Sequences [no]:

Master Sequences Identified
INPUT SEQUENCES: 11 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C11 Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  246 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  246 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/373/RPA2-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0]