--- EXPERIMENT NOTES




 --- EXPERIMENT PROPERTIES

#Mon Nov 21 14:01:31 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/295/Lmpt-PD/input.fasta
input.names=
mrbayes.params=
codeml.params=



 --- PSRF SUMMARY

      Estimated marginal likelihoods for runs sampled in files
"/opt/ADOPS/295/Lmpt-PD/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/295/Lmpt-PD/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/295/Lmpt-PD/batch/allfiles/mrbayes/input.fasta.fasta.mrb.lstat)

Run   Arithmetic mean   Harmonic mean
--------------------------------------
1      -4085.78         -4104.75
2      -4083.72         -4104.21
--------------------------------------
TOTAL    -4084.29         -4104.51
--------------------------------------


Model parameter summaries over the runs sampled in files
"/opt/ADOPS/295/Lmpt-PD/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/295/Lmpt-PD/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/295/Lmpt-PD/batch/allfiles/mrbayes/input.fasta.fasta.mrb.pstat".

95% HPD Interval
--------------------
Parameter         Mean      Variance     Lower       Upper       Median    min ESS*  avg ESS    PSRF+
------------------------------------------------------------------------------------------------------
TL{all}         0.448789    0.001731    0.370907    0.533737    0.447020   1487.59   1494.29    1.000
r(A<->C){all}   0.111599    0.000378    0.075354    0.150087    0.110073   1041.92   1088.90    1.000
r(A<->G){all}   0.186995    0.000825    0.133595    0.243679    0.185115    911.29    987.12    1.000
r(A<->T){all}   0.039585    0.000328    0.006085    0.073277    0.037778    864.19    993.96    1.000
r(C<->G){all}   0.058191    0.000148    0.036832    0.083405    0.057200   1150.69   1240.10    1.000
r(C<->T){all}   0.523852    0.001580    0.448754    0.604681    0.523878    786.89    825.51    1.000
r(G<->T){all}   0.079778    0.000349    0.046020    0.116855    0.078625    892.77    976.89    1.001
pi(A){all}      0.217296    0.000094    0.200016    0.237671    0.217284   1348.28   1370.55    1.000
pi(C){all}      0.302246    0.000120    0.279816    0.322466    0.302097   1086.32   1256.29    1.000
pi(G){all}      0.287621    0.000119    0.268890    0.310383    0.287552   1126.00   1230.11    1.000
pi(T){all}      0.192837    0.000090    0.173377    0.210915    0.192639   1078.86   1165.71    1.000
alpha{1,2}      0.114476    0.000258    0.084695    0.145506    0.113453   1296.09   1342.36    1.000
alpha{3}        3.790409    1.034821    2.055741    5.829935    3.671790   1383.78   1442.39    1.000
pinvar{all}     0.630142    0.000789    0.575408    0.684509    0.630567   1106.49   1281.04    1.001
------------------------------------------------------------------------------------------------------
* 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	-3754.462937
Model 2: PositiveSelection	-3754.462937
Model 0: one-ratio	-3775.37644
Model 3: discrete	-3753.700804
Model 7: beta	-3760.588294
Model 8: beta&w>1	-3753.707805


Model 0 vs 1	41.82700600000044

Model 2 vs 1	0.0

Model 8 vs 7	13.76097800000025

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_Lmpt-PD)

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

   108 V      0.959*        1.831
   125 M      1.000**       1.906

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_Lmpt-PD)

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

   108 V      0.671         1.454 +- 0.881
   125 M      0.953*        2.054 +- 1.069

>C1
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGVRASSRINRYFEQLPDEMVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C2
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGVRASSRINRYFEQLPDEMVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C3
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGVRASSRINRYFEQLPDEMVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C4
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGARASTRINRYFEQLPDELVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C5
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGARASSRINRYFEQLPDEVVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C6
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFERKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGVRASSRINRYFEQLPDDVVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPQCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C7
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFERKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGLRASSRINRYFEQLPDEAVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPFDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNLLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C8
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGVRASSRINRYFEQLPDELVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C9
MVKMLDLDRHALCPLWAALASSDVPWTGMDYACLNVLSTYCKVFDKEEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGARASSRINRYFEQLPEEAVPRLGSEGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
ELLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
>C10
MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDKKEIY
DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
FTWVPPGARASSRINRYFEQLPEEAVPRLGSDGACSRERQISYQLPKQDL
SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIV
AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
DCAKQKLM
CLUSTAL FORMAT for T-COFFEE Version_10.00.r1613 [http://www.tcoffee.org] [MODE:  ], CPU=0.00 sec, SCORE=100, Nseq=10, Len=558 

C1              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
C2              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
C3              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
C4              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
C5              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
C6              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFERKEIY
C7              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFERKEIY
C8              MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDRKEIY
C9              MVKMLDLDRHALCPLWAALASSDVPWTGMDYACLNVLSTYCKVFDKEEIY
C10             MVKMLDLDRHAECPLWAALASSDVPWTGMDYACLNVLSIYCKVFDKKEIY
                *********** ************************** *****:::***

C1              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C2              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C3              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C4              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C5              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C6              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C7              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C8              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C9              DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
C10             DLIVRKTCQSCKCPREAHAIYQQQTTNVHERLGFKLVSPADSGVEARDLG
                **************************************************

C1              FTWVPPGVRASSRINRYFEQLPDEMVPRLGSEGACSRERQISYQLPKQDL
C2              FTWVPPGVRASSRINRYFEQLPDEMVPRLGSEGACSRERQISYQLPKQDL
C3              FTWVPPGVRASSRINRYFEQLPDEMVPRLGSEGACSRERQISYQLPKQDL
C4              FTWVPPGARASTRINRYFEQLPDELVPRLGSEGACSRERQISYQLPKQDL
C5              FTWVPPGARASSRINRYFEQLPDEVVPRLGSEGACSRERQISYQLPKQDL
C6              FTWVPPGVRASSRINRYFEQLPDDVVPRLGSEGACSRERQISYQLPKQDL
C7              FTWVPPGLRASSRINRYFEQLPDEAVPRLGSEGACSRERQISYQLPKQDL
C8              FTWVPPGVRASSRINRYFEQLPDELVPRLGSEGACSRERQISYQLPKQDL
C9              FTWVPPGARASSRINRYFEQLPEEAVPRLGSEGACSRERQISYQLPKQDL
C10             FTWVPPGARASSRINRYFEQLPEEAVPRLGSDGACSRERQISYQLPKQDL
                ******* ***:**********:: ******:******************

C1              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C2              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C3              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C4              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C5              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C6              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C7              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPFDEHCAHCDNEIA
C8              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C9              SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIA
C10             SLEHCKHLEVQHEASFEDFVTARNEIALDIAYIKDAPYDEHCAHCDNEIV
                *************************************:***********.

C1              AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C2              AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C3              AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C4              AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C5              AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C6              AGELVVAAPKFVESVMWHPQCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C7              AGELVVAAPKFVESVMWHPKCFTCSTCNLLLVDLTYCVHDDKVYCERHYA
C8              AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C9              AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
C10             AGELVVAAPKFVESVMWHPKCFTCSTCNSLLVDLTYCVHDDKVYCERHYA
                *******************:******** *********************

C1              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C2              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C3              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C4              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C5              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C6              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C7              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C8              EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C9              ELLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
C10             EMLKPRCAGCDELIFSGEYTKAMDKDWHSGHFCCWQCDESLTGQRYVIRD
                *:************************************************

C1              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C2              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C3              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C4              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C5              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C6              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C7              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C8              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C9              DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
C10             DHPYCIKCYENVFANTCEECNKIIGIDSKDLSYKDKHWHEACFLCFKCHL
                **************************************************

C1              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C2              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C3              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C4              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C5              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C6              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C7              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C8              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C9              SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
C10             SLVDKQFGAKADKIYCGNCYDAQFASRCDGCGEVFRAGTKKMEYKTRQWH
                **************************************************

C1              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C2              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C3              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C4              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C5              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C6              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C7              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C8              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C9              ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
C10             ENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNKVITSGG
                **************************************************

C1              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C2              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C3              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C4              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C5              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C6              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C7              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C8              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C9              VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
C10             VTYKNEPWHRECFTCTHCNITLAGQRFTSRDEKPYCAECFGELFAKRCTA
                **************************************************

C1              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C2              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C3              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C4              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C5              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C6              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C7              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C8              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C9              CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
C10             CVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGFITDGPDILCP
                **************************************************

C1              DCAKQKLM
C2              DCAKQKLM
C3              DCAKQKLM
C4              DCAKQKLM
C5              DCAKQKLM
C6              DCAKQKLM
C7              DCAKQKLM
C8              DCAKQKLM
C9              DCAKQKLM
C10             DCAKQKLM
                ********




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/295/Lmpt-PD/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/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

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

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  558 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.alngins       	S	[0] 	default
-proxy         	S	[0] 	unset
-email         	S	[0] 
-clean_overaln 	D	[0] 	0 
-overaln_param 	S	[0] 
-overaln_mode  	S	[0] 
-overaln_model 	S	[0] 
-overaln_threshold	D	[0] 	0 
-overaln_target	D	[0] 	0 
-overaln_P1    	D	[0] 	0 
-overaln_P2    	D	[0] 	0 
-overaln_P3    	D	[0] 	0 
-overaln_P4    	D	[0] 	0 
-exon_boundaries	S	[0] 
-dump          	S	[0] 	no
-display       	D	[0] 	100 

INPUT FILES
	Input File (S) /opt/ADOPS/295/Lmpt-PD/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: 10 SEQUENCES  [PROTEIN]
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  558 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/295/Lmpt-PD/batch/allfiles/tcoffee/input.fasta.