--- EXPERIMENT NOTES




 --- EXPERIMENT PROPERTIES

#Sat Dec 10 02:26:02 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/325/nkd-PB/input.fasta
input.names=
mrbayes.params=
codeml.params=



 --- PSRF SUMMARY

      Estimated marginal likelihoods for runs sampled in files
"/opt/ADOPS/325/nkd-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/325/nkd-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/325/nkd-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.lstat)

Run   Arithmetic mean   Harmonic mean
--------------------------------------
1      -5089.79         -5103.18
2      -5089.35         -5103.67
--------------------------------------
TOTAL    -5089.55         -5103.45
--------------------------------------


Model parameter summaries over the runs sampled in files
"/opt/ADOPS/325/nkd-PB/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/325/nkd-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/325/nkd-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}         0.503200    0.001553    0.431010    0.583212    0.501100   1167.67   1233.12    1.000
r(A<->C){all}   0.065476    0.000133    0.043309    0.087562    0.065288    816.34    898.26    1.000
r(A<->G){all}   0.164292    0.000422    0.126686    0.205815    0.163483   1106.93   1135.67    1.000
r(A<->T){all}   0.106425    0.000525    0.063222    0.150321    0.105321    815.21    827.44    1.000
r(C<->G){all}   0.095433    0.000198    0.068631    0.122182    0.094530    927.54   1012.63    1.000
r(C<->T){all}   0.445223    0.001216    0.384464    0.519995    0.445305    447.59    791.94    1.000
r(G<->T){all}   0.123150    0.000604    0.075428    0.171322    0.121948    867.66    899.76    1.000
pi(A){all}      0.260297    0.000094    0.240630    0.278652    0.260241   1086.42   1149.67    1.000
pi(C){all}      0.348951    0.000112    0.329190    0.370499    0.349037   1171.18   1206.23    1.000
pi(G){all}      0.268056    0.000094    0.249036    0.286584    0.268029   1030.56   1154.48    1.000
pi(T){all}      0.122696    0.000048    0.110340    0.137209    0.122628    869.94    989.37    1.000
alpha{1,2}      0.252702    0.005575    0.113975    0.393663    0.245623    617.37    688.95    1.000
alpha{3}        1.472105    0.421492    0.438438    2.731180    1.346534    825.22    901.75    1.000
pinvar{all}     0.327987    0.009761    0.126665    0.508803    0.340840    649.98    660.99    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	-4097.859599
Model 2: PositiveSelection	-4096.555314
Model 0: one-ratio	-4170.697307
Model 3: discrete	-4095.980489
Model 7: beta	-4099.331377
Model 8: beta&w>1	-4096.071671


Model 0 vs 1	145.67541600000004

Model 2 vs 1	2.608570000000327

Model 8 vs 7	6.519412000001466

Additional information for M7 vs M8:
Naive Empirical Bayes (NEB) analysis
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: D_melanogaster_nkd-PB)

            Pr(w>1)     post mean +- SE for w

    84 S      0.913         1.886
    92 S      0.630         1.486
    99 G      0.709         1.598
   100 H      0.647         1.512
   101 T      0.674         1.548
   153 T      0.820         1.759
   319 A      0.580         1.414
   320 A      0.943         1.928
   335 Q      0.797         1.723
   336 S      0.897         1.863
   338 S      0.938         1.922
   339 A      0.625         1.478
   340 R      0.677         1.554
   487 H      0.782         1.703
   488 S      0.838         1.781
   489 S      0.701         1.588
   490 H      0.678         1.555
   491 S      0.949         1.937
   508 S      0.868         1.822
   510 V      0.648         1.498

Bayes Empirical Bayes (BEB) analysis (Yang, Wong & Nielsen 2005. Mol. Biol. Evol. 22:1107-1118)
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: D_melanogaster_nkd-PB)

            Pr(w>1)     post mean +- SE for w

    84 S      0.910         2.131 +- 0.625
    92 S      0.637         1.664 +- 0.838
    99 G      0.720         1.812 +- 0.808
   100 H      0.653         1.692 +- 0.831
   101 T      0.687         1.754 +- 0.824
   102 A      0.514         1.419 +- 0.899
   153 T      0.815         1.976 +- 0.727
   319 A      0.586         1.574 +- 0.845
   320 A      0.931         2.163 +- 0.591
   335 Q      0.800         1.949 +- 0.749
   336 S      0.902         2.120 +- 0.641
   338 S      0.927         2.155 +- 0.598
   339 A      0.646         1.682 +- 0.843
   340 R      0.684         1.748 +- 0.822
   487 H      0.790         1.932 +- 0.759
   488 S      0.850         2.036 +- 0.706
   489 S      0.715         1.803 +- 0.811
   490 H      0.695         1.769 +- 0.823
   491 S      0.943         2.181 +- 0.577
   508 S      0.877         2.081 +- 0.674
   510 V      0.684         1.738 +- 0.867

>C1
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASGAGSKQQSHHQTNHHSSGRSHPG
HTAHPQDVSSGGSHSKHLRISSTSNGKHGKYSNMQQQLPQDEDVVDAAAT
MQQQQHTGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQPLQFSFTFY
DLDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINVRLTVSPEGK
SKSQPVVPVPVAAGFSSSHASKLKKLPTGLAAMSKPLAGGGVGSGGASAL
TTSAGNRRQHRYRPRKLIKSDDEDDDSNSEKEKDAAHAPAADQPSGSGTK
ATGKSHHHQSQSARYHQKNNSRAEQCCTEQNTPDNGHNTYENMLNLKCCK
PEVDQVDCPSHRQHHQSHPNHQMRQQDIYMKQATQRVKMLRRARKQKKTP
SQCESHTATGSTTTTTTTATPTLQYGLENTHVNYQPQSGRPAVAAQLQST
HGGAHHPQHSSSSAGHRGQRSAAPPHSSHSSQPPQPPRASPTAHTYLPSA
VGHoooooooooooooooooooooo
>C2
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASGAGSKQQSHHQTNHHSSARSHPG
HAVHPQDVSTGGSHSKHLRISSTSNGKHGKYSNMQQQLPQDEDVVDAAAT
MQQQQQDTGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQPLQFSFTF
YDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINVRLTVSPEG
KSKSQPVVPVPVAVGYSSSHASKLKKLPTGLAAMSKPLAGGGVGSGGATA
LTTSAGNRRQHRYRPRKLIKSDDEDDDSNSEKEKDAAHAPAADQPSGSGT
KASEKSHHHQAQSARYHQKNNSRAEQCCTEQNTADNGHNTYENMLNLKCC
KPEVDQVDCPSHRQHHQSHQNHQMRQQDIYMKQATQRVKMLRRARKQKKT
PSQCESHTATGSTTTTTTTATPTLQYGLENTHVNYQPQSGRPAVAAQLQS
THGGGHHPQHSSGSAGHRGQRSAAPPHSSHSSQPPQPPRASPTAHTYLPS
AVGHooooooooooooooooooooo
>C3
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASGAGSKQQSHHQTNHHSSGRSHPG
HAVHPQDVSSGGSHSKHLRISSTSNGKHGKYSNMQQQLPQDEDVVDAAAT
MQQQQQHTGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQPLQFSFTF
YDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINVRLTVSPEG
KSKSQPVVPVPVAAGFSSSHASKLKKLPTGLAAMSKPLAGGGVGSGGATA
LTTSAGNRRQHRYRPRKLIKSDDEDDDSNSEKEKDAAHAPAADQPSGSGT
KATGKSHHHQAQSARYHQKNNSRAEQCCTEQNTPDNGHNTYENMLNLKCC
KPEVDQVDCPSHRQHHQSHQNHQMRQQDIYMKQATQRVKMLRRARKQKKT
PSQCESHTATGSTTTTTTTATPTLQYGLENTHVNYQPQSGRPAVAAQLQS
THGGGHHPQHSSGSAGHRGQRSAAPPHSSHSSQPPQPPRASPTAHTYLPS
AVGHooooooooooooooooooooo
>C4
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASGGGSKQQSHHQTNHHTSGRNHPG
HPGHPQDVSSGGSHSKHLRISSTSNGKHGKYSSMQQQLPQDEDAVDAAAT
MQQQHTGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQPLQFSFTFYD
LDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINVRLTVSPEGKS
KSQPVVPVPVAAGFSSSHASKLKKLPTGLAAMSKPLAGGGVGSGGATVLT
TSAGNRRQHRYRPRKLIKSDDEDDDSNSEKEKDAHTHTHSHTPAADQPSG
SGTKGTGKSHHHQAQSARYHQKNNSRAEQCCTEQNTPDNGHNTYENMLNL
KCCKPEVDQVDCPSHRQHHQSHQNHQMRQQDIYMKQATQRVKMLRRARKQ
KKTPSQCESHTATGSTTTTTTTATPTLQYELENTHVNYQPQSGRPAVAAQ
LQSTHGGSHHPQHSSGSASHRGQRSAAAPHSTQSSQPSQPPQPPRASPTA
HTYLPPAAGHooooooooooooooo
>C5
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASGGGSKQQSQHQTSHHSSGRSHPG
QPGHPQDVSSGGSHSKHLRISSTSNGKHGKYSNMQQHLPQDEDVVDAAAT
MQQQHSGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQPLQFSFTFYD
LDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINVRLTVSPEGKS
KSQPVVPVPVAAGFSSSHASKLKKLPTGLAAMSKPLAGAGVGSGGATALT
TSAGNRRQHRYRPRKLIKSDDEDDDSNSEKEKDAHTHTHTHTHTPAAADQ
PSGSGTKATGKSHHHQAQSARYHQKNNSRAEQCCTEQNTPDNGHNTYENM
LNLKCCKPEVDQVDCPSHRQHHQSHQNHQMRQQDIYMKQATQRVKMLRRA
RKQKKTPSQCESHTATGSTTTTTTTATPTLQYGLENTHVNYQPQSGRPAV
AAQLQSTHGGPHHPQHSSSSASHRGQRSAAPPHSTQPSQPPQPPRASPTA
HTYLPPAVGHooooooooooooooo
>C6
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASSGATKQQSHQHHQSHSQTHPHHH
HHASGRSHAAHPGHPQDASSGGSHSKHLRINSTSNGKHGKYSNMQQHLPQ
DEDVVDAAASVQQHAGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQP
LQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINVR
LTVSPEGKSKAQPVVPLPVPVPVATGFGSSHASKLKKLPSGLGGAVGSGG
ATALTTSAGNRRQHRYRPRKLIKSDDEDDDSNSEKDMATTATDQPSGSGA
RSGGKGHHHQAQATRYHQKNSSRAEQYCAELNAPDNGHNTYENMLNLKCC
KPEGDQADCPSHRQHHQLRQQDIYMKQATQRVKMLRRARKQKKTPSQCES
HTATGSTTTTTTTATPTLQYGLENTHANCQPQSGRPAIAAQLQSTYGGHH
HQHSSGHRGQRSAAATAQPQCPPQCQYQSQCQPPQPPRTSPTAHTHLPSA
AGHoooooooooooooooooooooo
>C7
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASSGATKQSHQHHQSQSNPHHHHSS
GRSHPSQPGHPQDVSSGGSHSKHLRISSTSNGKHGKYSNTQQHLPQDEDV
VDAAAAVQQQHAGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQPLQF
SFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINVRLTV
SPEGKSKSQPVVPLPVPVPVAAGFGSSHASKLKKLPTGLAGGVGSGGTTS
AGNRRQHRYRPRKLIKSDDEDDDSNSEKEKDLATADQATGSGAKSGAKGH
HHQAQATRYHQKNSSRAEQCCAEQNTPDNGHNTYENMLNLKCCKPEGDQA
DCPSHLLHHQHHQNHQNHQLRQQDIYMKQATQRVKMLRRARKQKKTPSQC
ESHTATGSTTTTTTTTATPTLQYGLENTHVNCQPQSGRPAIAAQLQSTYG
GHHHHQHSSGHRGQRSAAPSQCQSQSQCQPPQPPRASPTAHTHLPPAAGH
ooooooooooooooooooooooooo
>C8
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNVSSGVSKQQQSHHQHHQTNPHHHHS
SGRSHPSHSGNPQDVSSSASHSKHLRISSTSNGKHGKYSNMQQQHLPQDE
DVVDAAASMQQQPQHSGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKSSQ
PLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTINV
RLTVSPEGKSKSQPVVAVPVPAGFSSSHASKLKKLPTGLAAMSKPLAAGG
VGSGGATALTTSAGNRRQHRYRPRKLIKSDDEDDDSNSEKEKDAAPTSEQ
ASGSGAKAGGKSHHQARYHHNQSQNQKNNSRAEQCCTDQNTPDNGHNTYE
NMLNLKCCKPESDQVDCPSHRQHHQLRQQDIYMKQATQRVKMLRRARKQK
KTPSQCESHTATGSTTTTTTTATPTLQYGLENPHVNCQPQSGRPAVAAQL
QSTYGGYHHHQHSSGTSSHRGQRSAAAAAASQPSQPPQPPRASPTAHTHL
PSAAGHooooooooooooooooooo
>C9
MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
LVSERDNNIQLRSPVVNIITTPPGNASSGAGKQQAHLHHPTNPHHHHAAG
RSHPSQPGHPQDVISGGSHSKHLRISSTNNGNGNGKHGKYSNMQHNVHLP
QDEDVVDAAASMQQQQHGGHAHSRHLHHHKEERIRLEEFTCDVSVEGGKS
SQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPHCGSKTI
NVRLTVSPEGKSKAQPVVPVPVAAGFGSSHASKLKKLPTGLAAMSKPLAG
AAPNAAGAGGGGSGGATALTTSAGNRRQHRYRPRKLIKSDDEDDDSNSEK
EKDPSAPSLEQPSGSGARKSHHQSRYSHGQKISSRAEQCCSEQHTPDNNA
HNTYENMLNLKCCKPESDQVDCPSHRQHQQQQHHLQHHQNHQMRQQDIYM
KQATQRVKMLRRARKQKKTPSQCESHTATGSTTTTTTTTATPTLQYGLEN
PHVNCQPQSGRPAVAAQLQSAHGGHHLHSSGTATAGHRGQRSTAAAAAAA
AVAPQPQPPRASPTTHTHLPPAAGH
CLUSTAL FORMAT for T-COFFEE Version_10.00.r1613 [http://www.tcoffee.org] [MODE:  ], CPU=0.00 sec, SCORE=100, Nseq=9, Len=634 

C1              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C2              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C3              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C4              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C5              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C6              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C7              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C8              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
C9              MAGNIVKWWKHKILGGYKQFSVQECTTDSEELMYHQVRASSSCSAPPDLL
                **************************************************

C1              LVSERDNNIQLRSPVVNIITTPPGNASGAGSKQQ----SHHQTN------
C2              LVSERDNNIQLRSPVVNIITTPPGNASGAGSKQQ----SHHQTN------
C3              LVSERDNNIQLRSPVVNIITTPPGNASGAGSKQQ----SHHQTN------
C4              LVSERDNNIQLRSPVVNIITTPPGNASGGGSKQQ----SHHQTN------
C5              LVSERDNNIQLRSPVVNIITTPPGNASGGGSKQQ----SQHQTS------
C6              LVSERDNNIQLRSPVVNIITTPPGNASSGATKQQSHQHHQSHSQTHPHHH
C7              LVSERDNNIQLRSPVVNIITTPPGNASSGATK-QSHQHHQSQSNP---HH
C8              LVSERDNNIQLRSPVVNIITTPPGNVSSGVSKQQQSHHQHHQTNP---HH
C9              LVSERDNNIQLRSPVVNIITTPPGNASSGAGKQQ--AHLHHPTNP---HH
                *************************.*..  * *     :  :.      

C1              HHSSGRSHPGHTAHPQDVSSGGSHSKHLRISSTSNG----KHGKYSNMQQ
C2              HHSSARSHPGHAVHPQDVSTGGSHSKHLRISSTSNG----KHGKYSNMQQ
C3              HHSSGRSHPGHAVHPQDVSSGGSHSKHLRISSTSNG----KHGKYSNMQQ
C4              HHTSGRNHPGHPGHPQDVSSGGSHSKHLRISSTSNG----KHGKYSSMQQ
C5              HHSSGRSHPGQPGHPQDVSSGGSHSKHLRISSTSNG----KHGKYSNMQQ
C6              HHASGRSHAAHPGHPQDASSGGSHSKHLRINSTSNG----KHGKYSNMQQ
C7              HHSSGRSHPSQPGHPQDVSSGGSHSKHLRISSTSNG----KHGKYSNTQQ
C8              HHSSGRSHPSHSGNPQDVSSSASHSKHLRISSTSNG----KHGKYSNMQQ
C9              HHAAGRSHPSQPGHPQDVISGGSHSKHLRISSTNNGNGNGKHGKYSNMQH
                **::.*.*..:. :***. :..********.**.**    ******. *:

C1              --QLPQDEDVVDAAATMQQQQ-HTGHAHSRHLHHHKEERIRLEEFTCDVS
C2              --QLPQDEDVVDAAATMQQQQQDTGHAHSRHLHHHKEERIRLEEFTCDVS
C3              --QLPQDEDVVDAAATMQQQQQHTGHAHSRHLHHHKEERIRLEEFTCDVS
C4              --QLPQDEDAVDAAATMQQQH--TGHAHSRHLHHHKEERIRLEEFTCDVS
C5              --HLPQDEDVVDAAATMQQQH--SGHAHSRHLHHHKEERIRLEEFTCDVS
C6              --HLPQDEDVVDAAASVQQ---HAGHAHSRHLHHHKEERIRLEEFTCDVS
C7              --HLPQDEDVVDAAAAVQQQ--HAGHAHSRHLHHHKEERIRLEEFTCDVS
C8              -QHLPQDEDVVDAAASMQQQPQHSGHAHSRHLHHHKEERIRLEEFTCDVS
C9              NVHLPQDEDVVDAAASMQQQ-QHGGHAHSRHLHHHKEERIRLEEFTCDVS
                  :******.*****::**     **************************

C1              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C2              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C3              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C4              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C5              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C6              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C7              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C8              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
C9              VEGGKSSQPLQFSFTFYDLDGHHGKITKDDIVGIVYTIYESIGKSVVVPH
                **************************************************

C1              CGSKTINVRLTVSPEGKSKSQPVV----PVPVAAGFSSSHASKLKKLPTG
C2              CGSKTINVRLTVSPEGKSKSQPVV----PVPVAVGYSSSHASKLKKLPTG
C3              CGSKTINVRLTVSPEGKSKSQPVV----PVPVAAGFSSSHASKLKKLPTG
C4              CGSKTINVRLTVSPEGKSKSQPVV----PVPVAAGFSSSHASKLKKLPTG
C5              CGSKTINVRLTVSPEGKSKSQPVV----PVPVAAGFSSSHASKLKKLPTG
C6              CGSKTINVRLTVSPEGKSKAQPVVPLPVPVPVATGFGSSHASKLKKLPSG
C7              CGSKTINVRLTVSPEGKSKSQPVVPLPVPVPVAAGFGSSHASKLKKLPTG
C8              CGSKTINVRLTVSPEGKSKSQPVV----AVPVPAGFSSSHASKLKKLPTG
C9              CGSKTINVRLTVSPEGKSKAQPVV----PVPVAAGFGSSHASKLKKLPTG
                *******************:****    .***..*:.***********:*

C1              LAAMSKPLAG--------GGVGSGGASALTTSAGNRRQHRYRPRKLIKSD
C2              LAAMSKPLAG--------GGVGSGGATALTTSAGNRRQHRYRPRKLIKSD
C3              LAAMSKPLAG--------GGVGSGGATALTTSAGNRRQHRYRPRKLIKSD
C4              LAAMSKPLAG--------GGVGSGGATVLTTSAGNRRQHRYRPRKLIKSD
C5              LAAMSKPLAG--------AGVGSGGATALTTSAGNRRQHRYRPRKLIKSD
C6              LG----------------GAVGSGGATALTTSAGNRRQHRYRPRKLIKSD
C7              LA----------------GGVGSGG----TTSAGNRRQHRYRPRKLIKSD
C8              LAAMSKPLAA--------GGVGSGGATALTTSAGNRRQHRYRPRKLIKSD
C9              LAAMSKPLAGAAPNAAGAGGGGSGGATALTTSAGNRRQHRYRPRKLIKSD
                *.                .. ****    *********************

C1              DEDDDSNSEKEKDA-----AHAP---AADQPSGSGTKATGKSHHHQSQSA
C2              DEDDDSNSEKEKDA-----AHAP---AADQPSGSGTKASEKSHHHQAQSA
C3              DEDDDSNSEKEKDA-----AHAP---AADQPSGSGTKATGKSHHHQAQSA
C4              DEDDDSNSEKEKDAHTHTHSHTP---AADQPSGSGTKGTGKSHHHQAQSA
C5              DEDDDSNSEKEKDAHTHTHTHTHTPAAADQPSGSGTKATGKSHHHQAQSA
C6              DEDDDSNSEKDMATT-----------ATDQPSGSGARSGGKGHHHQAQAT
C7              DEDDDSNSEKEKDLA-----------TADQATGSGAKSGAKGHHHQAQAT
C8              DEDDDSNSEKEKD-------AAP---TSEQASGSGAKAGGKSHHQARYHH
C9              DEDDDSNSEKEKDP------SAP---SLEQPSGSGAR---KSHHQSRYSH
                **********:               : :*.:***::   *.**:     

C1              R--YHQKNNSRAEQCCTEQNTPDN-GHNTYENMLNLKCCKPEVDQVDCPS
C2              R--YHQKNNSRAEQCCTEQNTADN-GHNTYENMLNLKCCKPEVDQVDCPS
C3              R--YHQKNNSRAEQCCTEQNTPDN-GHNTYENMLNLKCCKPEVDQVDCPS
C4              R--YHQKNNSRAEQCCTEQNTPDN-GHNTYENMLNLKCCKPEVDQVDCPS
C5              R--YHQKNNSRAEQCCTEQNTPDN-GHNTYENMLNLKCCKPEVDQVDCPS
C6              R--YHQKNSSRAEQYCAELNAPDN-GHNTYENMLNLKCCKPEGDQADCPS
C7              R--YHQKNSSRAEQCCAEQNTPDN-GHNTYENMLNLKCCKPEGDQADCPS
C8              NQSQNQKNNSRAEQCCTDQNTPDN-GHNTYENMLNLKCCKPESDQVDCPS
C9              G----QKISSRAEQCCSEQHTPDNNAHNTYENMLNLKCCKPESDQVDCPS
                     ** .***** *:: ::.** .**************** **.****

C1              HRQHHQS------HPNHQMRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C2              HRQHHQS------HQNHQMRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C3              HRQHHQS------HQNHQMRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C4              HRQHHQS------HQNHQMRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C5              HRQHHQS------HQNHQMRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C6              HR------------QHHQLRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C7              HLLHHQHH---QNHQNHQLRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C8              HRQH------------HQLRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
C9              HRQHQQQQHHLQHHQNHQMRQQDIYMKQATQRVKMLRRARKQKKTPSQCE
                *               **:*******************************

C1              SHTATGS-TTTTTTTATPTLQYGLENTHVNYQPQSGRPAVAAQLQSTHGG
C2              SHTATGS-TTTTTTTATPTLQYGLENTHVNYQPQSGRPAVAAQLQSTHGG
C3              SHTATGS-TTTTTTTATPTLQYGLENTHVNYQPQSGRPAVAAQLQSTHGG
C4              SHTATGS-TTTTTTTATPTLQYELENTHVNYQPQSGRPAVAAQLQSTHGG
C5              SHTATGS-TTTTTTTATPTLQYGLENTHVNYQPQSGRPAVAAQLQSTHGG
C6              SHTATGS-TTTTTTTATPTLQYGLENTHANCQPQSGRPAIAAQLQSTYGG
C7              SHTATGSTTTTTTTTATPTLQYGLENTHVNCQPQSGRPAIAAQLQSTYGG
C8              SHTATGS-TTTTTTTATPTLQYGLENPHVNCQPQSGRPAVAAQLQSTYGG
C9              SHTATGSTTTTTTTTATPTLQYGLENPHVNCQPQSGRPAVAAQLQSAHGG
                ******* ************** ***.*.* ********:******::**

C1              AHHPQHSSSSAGHRGQRSAAP------PHSSHS---SQPPQPPRASPTAH
C2              GHHPQHSSGSAGHRGQRSAAP------PHSSHS---SQPPQPPRASPTAH
C3              GHHPQHSSGSAGHRGQRSAAP------PHSSHS---SQPPQPPRASPTAH
C4              SHHPQHSSGSASHRGQRSAAA------PHSTQSSQPSQPPQPPRASPTAH
C5              PHHPQHSSSSASHRGQRSAAP------PHSTQ---PSQPPQPPRASPTAH
C6              -HHHQHSSG---HRGQRSAAATAQPQCPPQCQYQSQCQPPQPPRTSPTAH
C7              HHHHQHSSG---HRGQRSAA-------PSQCQSQSQCQPPQPPRASPTAH
C8              YHHHQHSSGTSSHRGQRSAAA------AAASQP--SQP-PQPPRASPTAH
C9              HHLHSSGTATAGHRGQRSTAA------AAAAAA--VAPQPQPPRASPTTH
                 *  . .:.   ******:*       .           *****:***:*

C1              TYLPSAVGHoooooooooooooooooooooo---
C2              TYLPSAVGHooooooooooooooooooooo----
C3              TYLPSAVGHooooooooooooooooooooo----
C4              TYLPPAAGHooooooooooooooo----------
C5              TYLPPAVGHooooooooooooooo----------
C6              THLPSAAGHoooooooooooooooooooooo---
C7              THLPPAAGHooooooooooooooooooooooooo
C8              THLPSAAGHooooooooooooooooooo------
C9              THLPPAAGH-------------------------
                *:**.*.**                         




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/325/nkd-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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:
ins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alnins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	--- Process Method/Library/Aln Mproba_pair
	xxx Retrieved S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	xxx Retrieved Mproba_pair

	All Methods Retrieved

MANUAL PENALTIES: gapopen=0 gapext=0

	Library Total Size: [61684]

Library Relaxation: Multi_proc [72]
 ins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	--- Process Method/Library/Aln Mproba_pair
	xxx Retrieved S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	xxx Retrieved Mproba_pair

	All Methods Retrieved

MANUAL PENALTIES: gapopen=0 gapext=0

	Library Total Size: [61684]

Library Relaxation: Multi_proc [72]
 ins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	--- Process Method/Library/Aln Mproba_pair
	xxx Retrieved S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	xxx Retrieved Mproba_pair

	All Methods Retrieved

MANUAL PENALTIES: gapopen=0 gapext=0

	Library Total Size: [61684]

Library Relaxation: Multi_proc [72]
 ins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	--- Process Method/Library/Aln Mproba_pair
	xxx Retrieved S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	xxx Retrieved Mproba_pair

	All Methods Retrieved

MANUAL PENALTIES: gapopen=0 gapext=0

	Library Total Size: [61684]

Library Relaxation: Multi_proc [72]
 ins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	--- Process Method/Library/Aln Mproba_pair
	xxx Retrieved S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	xxx Retrieved Mproba_pair

	All Methods Retrieved

MANUAL PENALTIES: gapopen=0 gapext=0

	Library Total Size: [61684]

Library Relaxation: Multi_proc [72]
 ins       	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/325/nkd-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: 9 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8 Length  575 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9 Length  575 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	--- Process Method/Library/Aln Mproba_pair
	xxx Retrieved S/opt/ADOPS/325/nkd-PB/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln
	xxx Retrieved Mproba_pair

	All Methods Retrieved

MANUAL PENALTIES: gapopen=0 gapext=0

	Library Total Size: [61684]

Library Relaxation: Multi_proc [72]
 ins       	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 
-o