--- EXPERIMENT NOTES




 --- EXPERIMENT PROPERTIES

#Sat Nov 12 06:08:40 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/210/cnc-PP/input.fasta
input.names=
mrbayes.params=
codeml.params=



 --- PSRF SUMMARY

      Estimated marginal likelihoods for runs sampled in files
"/opt/ADOPS/210/cnc-PP/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/210/cnc-PP/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/210/cnc-PP/batch/allfiles/mrbayes/input.fasta.fasta.mrb.lstat)

Run   Arithmetic mean   Harmonic mean
--------------------------------------
1      -7361.30         -7377.26
2      -7360.30         -7374.68
--------------------------------------
TOTAL    -7360.68         -7376.64
--------------------------------------


Model parameter summaries over the runs sampled in files
"/opt/ADOPS/210/cnc-PP/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/210/cnc-PP/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/210/cnc-PP/batch/allfiles/mrbayes/input.fasta.fasta.mrb.pstat".

95% HPD Interval
--------------------
Parameter         Mean      Variance     Lower       Upper       Median    min ESS*  avg ESS    PSRF+
------------------------------------------------------------------------------------------------------
TL{all}         1.002698    0.003831    0.875638    1.121140    1.000700   1231.50   1249.64    1.000
r(A<->C){all}   0.079315    0.000127    0.057031    0.099807    0.078776   1011.89   1045.41    1.000
r(A<->G){all}   0.206082    0.000431    0.167266    0.248520    0.205507    799.45    807.78    1.000
r(A<->T){all}   0.114033    0.000320    0.078520    0.148240    0.113506    784.99    795.82    1.000
r(C<->G){all}   0.045573    0.000046    0.031811    0.058072    0.045322   1157.37   1161.03    1.000
r(C<->T){all}   0.492318    0.000777    0.437624    0.545145    0.492300    723.28    756.83    1.000
r(G<->T){all}   0.062679    0.000118    0.041921    0.083177    0.062208    982.25   1107.66    1.000
pi(A){all}      0.219658    0.000073    0.204107    0.236290    0.219559    832.13    836.43    1.000
pi(C){all}      0.317225    0.000090    0.298602    0.335067    0.317092   1239.73   1257.10    1.000
pi(G){all}      0.291173    0.000089    0.272741    0.308857    0.291207    941.69   1032.44    1.000
pi(T){all}      0.171944    0.000052    0.157646    0.185758    0.171901    937.57    941.76    1.000
alpha{1,2}      0.150189    0.000154    0.126042    0.174684    0.149499   1170.81   1303.78    1.001
alpha{3}        3.966452    0.840392    2.349805    5.772556    3.866880   1176.12   1338.56    1.000
pinvar{all}     0.408646    0.000786    0.354542    0.464245    0.409864   1103.59   1229.90    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	-6865.411764
Model 2: PositiveSelection	-6865.411765
Model 0: one-ratio	-6903.877662
Model 3: discrete	-6857.641317
Model 7: beta	-6858.657581
Model 8: beta&w>1	-6858.381574


Model 0 vs 1	76.93179599999894

Model 2 vs 1	1.999998858082108E-6

Model 8 vs 7	0.5520140000007814
>C1
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHYPGYSYQASPS
NGAPGTPGQHGQYGSGANATLQPPPPPPPPHHAAMLHHPNAALGDICPTG
QPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSSD
INQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVS
NGSGSSAQLGAGNPHGNQANGASGGVGSMSGSAVGAGATGMTADLLASGG
AGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYG
GPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTAPPA
AATAVQSQSIKYEYDAGYASSGMASGGISEPGAMGPALSKDYHHHQPYGM
GASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPL
VATKTASKGASAGNSSSVGGNSSNLEEEHLTRDEKRARSLNIPISVPDII
NLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILT
LEDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLRDPEGN
PCSPADYSLQQAADGSVYLLPREKSEGNNTATAASNAVSSASGGSLNGHV
PTQAPMHSHQSHGMQAQHVVGGMSQQQQQQSRLPPHLQQQHHLQSQQQQP
GGQQQQQHRKEooooooo
>C2
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHYPGYSYQASPS
NVAPGTPGQHGQYGSGANASLQPPPPPPPHHAAMLHHPNAAALGDICPTG
QPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSSD
INQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVS
NGSGSSAQLGAGNPHGNQANGASGGVGPMSGSAVGAGATGMTADLLASGG
AGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYG
GPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTAPPA
AATAVQSQSIKYEYDAGYASSGMASGGISEPGAMGPALSKDYHHHQAYGM
GASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPL
VATKTASKGTSAGNSSSVGGNSSSLEEEHLTRDEKRARSLNIPISVPDII
NLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILT
LEDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLRDPEGN
PCSPADYSLQQAADGSVYLLPREKSEGNNTATAASNAVSSASGGSLNGHV
PTQAPMHSHQSHGMQAQHVVGGMSQQQQQQSRLPPHLQQQHHLQSQQQQP
GGQQQQQHRKEooooooo
>C3
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHYPGYSYQASPS
NGAPGTAGQHGQYGSGATATLQPPPPPPPHHAAMLHHPNAALGDICPTGQ
PHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSSDI
NQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVSN
GSGSSAQLGAGNPHGNQANGATGGVGPMSGSAVGAGATGMTADLLASGGA
GAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYGG
PYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTAPPAA
ATAAQSHSIKYEYDAGYASSGMASGGISEPGAMGPALSKDYHHHQAYGMG
ASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPLV
ATKTASKGSSAGNSSSVGGNSSSLEEEHLTRDEKRARSLNIPISVPDIIN
LPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILTL
EDEVNAVVKRKTQLNQDRDHLEGERKRISNKFAMLHRHVFQYLRDPEGNP
CSPADYSLQQAADGSVYLLPREKSEGNNTATAASNAVSSASGGSLNGHVP
TQAPMHSHQSHGMQAQHVVGGMSQQQQQQQSRLPPHLQQQQQHHLQSQQQ
QPGGQQQQQHRKEooooo
>C4
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHHYPGYSYQASP
SNGAPGTPGQHGQYGSGATASLQPPPPPPPPHHAAMLQHPNAALGDICPT
GQPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSS
DINQTDGFMNSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHV
SNGSGSSAQLGAGNPHGNQANGASGGVGPMSGSAVGAGATGMTADLLASG
GAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKY
GGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQAPSALPPTAPP
AAATAVQSQSIKYEYDAGYASSGMASGGISEPGAMGPALSKDYHHQAYGM
GASGSAFSGDYTVRPSPRSSQDLVQLNHTYSLPQGSGSLPRPQARDKKPL
VATKTASKGSSAGNSSSVGGNSTMEEEHLTRDEKRARSLNIPISVQDIIN
LPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILTL
EDEVNAVVKRKTQLNQDREHFESERKRISNKFAMLHRHVFQYLRDPEGNP
CSPADYSLQQAADGSVYLLPREKSEGNNSATAASNAVSSASGGSLNGHVP
TQAPMHSHQSHGMQAQHVVGGMPQQQQQQQQSRLPPHLQQQQQQQQQHHL
QSQQQQPGGQQQQQHRKE
>C5
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHYPGYSYQASPS
NGAAGPAPGQHGQYGSGAAAPLQPPPPPPPHHAAMLHHPNAALGDICPTG
QPHYGHNLGSAVSSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSSD
INQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVS
NGSGSSAQLGAGNPHGNQANGAAGGVGPMSGSAVGTGAAGMTADLLASGG
AGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYG
GPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTVPPT
TATAAQSQSIKYEYDAGYASSGMASGGISEPGAMGPALTKDYHHHQAYGM
GASGSSFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPL
VATKTTSKGTSAGGSSSSAGGSSSSLEDEHLTRDEKRARSLNIPISVQDI
INLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQIL
TLEDEVNAVVKRKTQLNQDRDHLEGERKRISNKFAMLHRHVFQYLRDPEG
NPCSPADYSLQQAADGSVYLLPREKSEGNSTATAASNAVSSAGAGSLNGH
VPPQAPMHGHHSQHGMQAQHVGSGMSQQQQQQQSRLPPHLQQQQQHLLQS
QQQQPGGQQQQQHRKEoo
>C6
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHYPGYSYQAAPS
NGAPGTAGQHGQYGSGASAPLQPPPPPPPHHAAMLHHPNAALGDICPTGQ
PHYGHNLGSAVSSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSSDI
NQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVSS
GSGSSAQLGTGNPHGNQANGAAGGVGPMSGSAVGTGAAGMTADLLASGGA
GAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYGG
PYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTAPPAA
ATAVQSQNIKYEYDAGYASSGMASGGISEPGAMGPALTKDYHHHQAYGMG
ASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPLV
ATKTASKGTSAGSSSSAGGSSSSMEEEHLTRDEKRARSLNIPISVQDIIN
LPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILTL
EDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLRDPEGNP
CSPADYSLQQAADGSVYLLPREKSEGNSTATAASNAVSSAGGGSLNGHVP
AQAPMHGLHSQHGMQAQHVGSGMSQQQQQQSRLPPHLQQQQQHLLQSQQQ
QPEGQQQQQHRKEooooo
>C7
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHYPGYSYQATPS
NGAPGTPGQHGQYGSGATAPLQPPPPPPPHHAAMLHHPNAALGDICPTGQ
PHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSSDI
NQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVSN
GSGSSAQLGAGNPHGNQANGAAGGVGPMSGSAVGTGAAGMTADLLASGGA
GAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYGG
PYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPTTAPPAA
ATAVQSQSIKYEYDAGYASSGMASGGISEPGAMGPALTKDYHHHQAYGMG
ASGSTYSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPLV
ATKTTSKGSSAGSNSSAGGSSSSLEDEHLTRDEKRARSLNIPISVQDIIN
LPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILTL
EDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLRDPEGNP
CSPADYSLQQATDGSVYLLPREKSEGNSTATAASNAVSSAGGGSLNGHVP
TQAPMHGHHSQHGMQAQHVGSGMSQQQQQQSRLPPHLQQQQQQHHLQSQQ
QQPGGQQPQQHRKEoooo
>C8
MTRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHYPGYSYQASPS
NGAPGTPGQHGQYGSGATAALQPPPPPPPHHAAMLHHPNAPLGDICPTGQ
PHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYSNTSSDI
NQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVSN
GSGSSAHLGAGNPHGNQANGAAGGVNSMSGSAVGTGAAGMTADLLASGGA
GAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYGG
PYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTVPPAA
ATAVQSQNIKYEYDAGYASSGMASSGISEPGAMGPALTKDYHHHQAYGMG
ASGSTFSADYNVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPLV
ATKTASKGSSAGSSSSAGGSSSNMEDEHLTRDEKRARSLNIPISVQDIIN
LPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILTL
EDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLRDPEGNP
CSPADYSLQQAADGSVYLLPREKSEGNSTATAASNAVSSASGGSLNGHLP
TQAPMHGHHGQHGMQAQHVGSGMSQQQQSRLPPHLQQQQQQQHHLQSQQQ
QPGGQQQQQHRKEooooo
>C9
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYSHHYPGYSYQASPS
NGAPTPGQHGQYGSGAAAPLQPPPPPPPHHAAMLHHPNAALGEICPTGQP
HYGHNLGSAVSSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNTSSDIN
QTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVSNG
SGSSTQLAAGNPHGNQANGATGGVGPMSGSAVGTGAAGMTADLLASGGAG
AQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYGGP
YDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTAPPATA
TAVQSQSIKYEFDAGYASSGMASGGITEPGAMGPALSKDYHHHQAYGMGA
SGSSFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARDKKPMVA
TKTASKGTSAGSSSSAGGSSSGMEDEHLTRDEKRARSLNIPISVQDIINL
PMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQILTLE
DEVNAVVKRKTELNQARDHLESERKRISNKFAMLHRHVFQYLRDPEGNPC
SPADYSLQQAADGSVYLLPRDKSEGNSTATAASNAVSSAGAGSLNGHGAT
QAPMHGHHSQHGMQAQHVGSGMSQQQQSRLPPHLQQQQPQQHHLQTQQQQ
PGGQQQQQHRKEoooooo
>C10
MPRLNRSVSMERLQDFATYFSPIPSMVGGVSEMSPYPHHYPSYSYQASPS
NGAPAPGQHGQYGSGAAAPLQPPPPPPPPHHAAMLHHPNAALGDICPTGQ
PHYGHNLGSAVTSSMHLTNSSHEADSAAAAAAAYKVEHDLMYYGNTSSDI
NQTDGFINSIFADEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSGHVSN
GSGSSAQLAAGNPHGNQVNGAASGVGPMSGSVVGTGAAGMTADLLASGGA
GAQGGTDRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQGKYGG
PYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQAPSAVPPTAPTAA
STAVQSQSIKYEYDAGYASSGMASGGVASEPGAMGPALTKDYHHHQAYGM
GASGSTFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQVRDKKPL
VATKTASKGTSAGSSSSGAGGSSGNLEDEHLTRDEKRARSLNIPISVHDI
INLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKLDQIL
TLEDEVHAVVKRKSQLNQERDHLDSERKRISNKFAMLHRHVFQYLRDPEG
NPCSPSDYSLQQAADGSVYLLPREKPEGNSTATSASSAVSAVAGSLSGHV
PSQAPMHGHHSQHGMQAQHVGSGMSQQQQQQQSRLPPHLQQQQQQQHHLQ
SQQQQPGGQQQQHRKEoo
CLUSTAL FORMAT for T-COFFEE Version_10.00.r1613 [http://www.tcoffee.org] [MODE:  ], CPU=0.00 sec, SCORE=100, Nseq=10, Len=732 

C1              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYP-HHYPGYSYQASP
C2              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYP-HHYPGYSYQASP
C3              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYP-HHYPGYSYQASP
C4              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYPHHHYPGYSYQASP
C5              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYP-HHYPGYSYQASP
C6              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYP-HHYPGYSYQAAP
C7              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYP-HHYPGYSYQATP
C8              MTRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYP-HHYPGYSYQASP
C9              MPRLNRSVSMERLQDFATYFSPIPSMVGGVSDMSPYS-HHYPGYSYQASP
C10             MPRLNRSVSMERLQDFATYFSPIPSMVGGVSEMSPYP-HHYPSYSYQASP
                *.*****************************:****. ****.*****:*

C1              SNGAPG-TPGQHGQYGSGANATLQPPPPPPPPHHAAMLHHPN-AALGDIC
C2              SNVAPG-TPGQHGQYGSGANASLQPPPPPPP-HHAAMLHHPNAAALGDIC
C3              SNGAPG-TAGQHGQYGSGATATLQPPPPPPP-HHAAMLHHPN-AALGDIC
C4              SNGAPG-TPGQHGQYGSGATASLQPPPPPPPPHHAAMLQHPN-AALGDIC
C5              SNGAAGPAPGQHGQYGSGAAAPLQPPPPPPP-HHAAMLHHPN-AALGDIC
C6              SNGAPG-TAGQHGQYGSGASAPLQPPPPPPP-HHAAMLHHPN-AALGDIC
C7              SNGAPG-TPGQHGQYGSGATAPLQPPPPPPP-HHAAMLHHPN-AALGDIC
C8              SNGAPG-TPGQHGQYGSGATAALQPPPPPPP-HHAAMLHHPN-APLGDIC
C9              SNGAPT--PGQHGQYGSGAAAPLQPPPPPPP-HHAAMLHHPN-AALGEIC
C10             SNGAPA--PGQHGQYGSGAAAPLQPPPPPPPPHHAAMLHHPN-AALGDIC
                ** *.   .********** *.********* ******:*** *.**:**

C1              PTGQPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C2              PTGQPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C3              PTGQPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C4              PTGQPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C5              PTGQPHYGHNLGSAVSSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C6              PTGQPHYGHNLGSAVSSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C7              PTGQPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C8              PTGQPHYGHNLGSAVTSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYSNT
C9              PTGQPHYGHNLGSAVSSSMHLTNSSHEADGAAAAAAAYKVEHDLMYYGNT
C10             PTGQPHYGHNLGSAVTSSMHLTNSSHEADSAAAAAAAYKVEHDLMYYGNT
                ***************:*************.*****************.**

C1              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C2              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C3              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C4              SSDINQTDGFMNSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C5              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C6              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C7              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C8              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C9              SSDINQTDGFINSIFTDEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
C10             SSDINQTDGFINSIFADEDLHLMDMNESFCRMVDNSTSNNSSVLGLPSSG
                **********:****:**********************************

C1              HVSNGSGSSAQLGAGNPHGNQANGASGGVGSMSGSAVGAGATGMTADLLA
C2              HVSNGSGSSAQLGAGNPHGNQANGASGGVGPMSGSAVGAGATGMTADLLA
C3              HVSNGSGSSAQLGAGNPHGNQANGATGGVGPMSGSAVGAGATGMTADLLA
C4              HVSNGSGSSAQLGAGNPHGNQANGASGGVGPMSGSAVGAGATGMTADLLA
C5              HVSNGSGSSAQLGAGNPHGNQANGAAGGVGPMSGSAVGTGAAGMTADLLA
C6              HVSSGSGSSAQLGTGNPHGNQANGAAGGVGPMSGSAVGTGAAGMTADLLA
C7              HVSNGSGSSAQLGAGNPHGNQANGAAGGVGPMSGSAVGTGAAGMTADLLA
C8              HVSNGSGSSAHLGAGNPHGNQANGAAGGVNSMSGSAVGTGAAGMTADLLA
C9              HVSNGSGSSTQLAAGNPHGNQANGATGGVGPMSGSAVGTGAAGMTADLLA
C10             HVSNGSGSSAQLAAGNPHGNQVNGAASGVGPMSGSVVGTGAAGMTADLLA
                ***.*****::*.:*******.***:.**..****.**:**:********

C1              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C2              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C3              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C4              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C5              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C6              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C7              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C8              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C9              SGGAGAQGGADRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
C10             SGGAGAQGGTDRLDASSDSAVSSMGSERVPSLSDGEWGEGSDSAQDYHQG
                *********:****************************************

C1              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTA
C2              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTA
C3              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTA
C4              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQAPSALPPTA
C5              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTV
C6              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTA
C7              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPTTA
C8              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTV
C9              KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQTPSALPPTA
C10             KYGGPYDFSYNNNSRLSTATRQPPVAQKKHQLYGKRDPHKQAPSAVPPTA
                *****************************************:***:*.*.

C1              PPAAATAVQSQSIKYEYDAGYASSGMASGGIS-EPGAMGPALSKDYHHHQ
C2              PPAAATAVQSQSIKYEYDAGYASSGMASGGIS-EPGAMGPALSKDYHHHQ
C3              PPAAATAAQSHSIKYEYDAGYASSGMASGGIS-EPGAMGPALSKDYHHHQ
C4              PPAAATAVQSQSIKYEYDAGYASSGMASGGIS-EPGAMGPALSKDYHH-Q
C5              PPTTATAAQSQSIKYEYDAGYASSGMASGGIS-EPGAMGPALTKDYHHHQ
C6              PPAAATAVQSQNIKYEYDAGYASSGMASGGIS-EPGAMGPALTKDYHHHQ
C7              PPAAATAVQSQSIKYEYDAGYASSGMASGGIS-EPGAMGPALTKDYHHHQ
C8              PPAAATAVQSQNIKYEYDAGYASSGMASSGIS-EPGAMGPALTKDYHHHQ
C9              PPATATAVQSQSIKYEFDAGYASSGMASGGIT-EPGAMGPALSKDYHHHQ
C10             PTAASTAVQSQSIKYEYDAGYASSGMASGGVASEPGAMGPALTKDYHHHQ
                *.:::**.**:.****:***********.*:: *********:***** *

C1              PYGMGASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C2              AYGMGASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C3              AYGMGASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C4              AYGMGASGSAFSGDYTVRPSPRSSQDLVQLNHTYSLPQGSGSLPRPQARD
C5              AYGMGASGSSFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C6              AYGMGASGSAFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C7              AYGMGASGSTYSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C8              AYGMGASGSTFSADYNVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C9              AYGMGASGSSFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQARD
C10             AYGMGASGSTFSGDYTVRPSPRTSQDLVQLNHTYSLPQGSGSLPRPQVRD
                .********::*.**.******:************************.**

C1              KKPLVATKTASKGASAG-NSSSVGGNSSNLEEEHLTRDEKRARSLNIPIS
C2              KKPLVATKTASKGTSAG-NSSSVGGNSSSLEEEHLTRDEKRARSLNIPIS
C3              KKPLVATKTASKGSSAG-NSSSVGGNSSSLEEEHLTRDEKRARSLNIPIS
C4              KKPLVATKTASKGSSAG-NSSSVGGNS-TMEEEHLTRDEKRARSLNIPIS
C5              KKPLVATKTTSKGTSAGGSSSSAGGSSSSLEDEHLTRDEKRARSLNIPIS
C6              KKPLVATKTASKGTSAG-SSSSAGGSSSSMEEEHLTRDEKRARSLNIPIS
C7              KKPLVATKTTSKGSSAG-SNSSAGGSSSSLEDEHLTRDEKRARSLNIPIS
C8              KKPLVATKTASKGSSAG-SSSSAGGSSSNMEDEHLTRDEKRARSLNIPIS
C9              KKPMVATKTASKGTSAG-SSSSAGGSSSGMEDEHLTRDEKRARSLNIPIS
C10             KKPLVATKTASKGTSAGSSSSGAGGSSGNLEDEHLTRDEKRARSLNIPIS
                ***:*****:***:*** ..*..**.*  :*:******************

C1              VPDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C2              VPDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C3              VPDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C4              VQDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C5              VQDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C6              VQDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C7              VQDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C8              VQDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C9              VQDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
C10             VHDIINLPMDEFNERLSKYDLSENQLSLIRDIRRRGKNKVAAQNCRKRKL
                * ************************************************

C1              DQILTLEDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLR
C2              DQILTLEDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLR
C3              DQILTLEDEVNAVVKRKTQLNQDRDHLEGERKRISNKFAMLHRHVFQYLR
C4              DQILTLEDEVNAVVKRKTQLNQDREHFESERKRISNKFAMLHRHVFQYLR
C5              DQILTLEDEVNAVVKRKTQLNQDRDHLEGERKRISNKFAMLHRHVFQYLR
C6              DQILTLEDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLR
C7              DQILTLEDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLR
C8              DQILTLEDEVNAVVKRKTQLNQDRDHLESERKRISNKFAMLHRHVFQYLR
C9              DQILTLEDEVNAVVKRKTELNQARDHLESERKRISNKFAMLHRHVFQYLR
C10             DQILTLEDEVHAVVKRKSQLNQERDHLDSERKRISNKFAMLHRHVFQYLR
                **********:******::*** *:*::.*********************

C1              DPEGNPCSPADYSLQQAADGSVYLLPREKSEGNNTATAASNAVSSASGGS
C2              DPEGNPCSPADYSLQQAADGSVYLLPREKSEGNNTATAASNAVSSASGGS
C3              DPEGNPCSPADYSLQQAADGSVYLLPREKSEGNNTATAASNAVSSASGGS
C4              DPEGNPCSPADYSLQQAADGSVYLLPREKSEGNNSATAASNAVSSASGGS
C5              DPEGNPCSPADYSLQQAADGSVYLLPREKSEGNSTATAASNAVSSAGAGS
C6              DPEGNPCSPADYSLQQAADGSVYLLPREKSEGNSTATAASNAVSSAGGGS
C7              DPEGNPCSPADYSLQQATDGSVYLLPREKSEGNSTATAASNAVSSAGGGS
C8              DPEGNPCSPADYSLQQAADGSVYLLPREKSEGNSTATAASNAVSSASGGS
C9              DPEGNPCSPADYSLQQAADGSVYLLPRDKSEGNSTATAASNAVSSAGAGS
C10             DPEGNPCSPSDYSLQQAADGSVYLLPREKPEGNSTATSASSAVS-AVAGS
                *********:*******:*********:*.***.:**:**.*** * .**

C1              LNGHVPTQAPMHSHQS-HGMQAQHVVGGMSQQQQQQ--SRLPPHLQQQ--
C2              LNGHVPTQAPMHSHQS-HGMQAQHVVGGMSQQQQQQ--SRLPPHLQQQ--
C3              LNGHVPTQAPMHSHQS-HGMQAQHVVGGMSQQQQQQQ-SRLPPHLQQQQ-
C4              LNGHVPTQAPMHSHQS-HGMQAQHVVGGMPQQQQQQQQSRLPPHLQQQQQ
C5              LNGHVPPQAPMHGHHSQHGMQAQHVGSGMSQQQQQQQ-SRLPPHLQQQQQ
C6              LNGHVPAQAPMHGLHSQHGMQAQHVGSGMSQQQQQQ--SRLPPHLQQQQQ
C7              LNGHVPTQAPMHGHHSQHGMQAQHVGSGMSQQQQQQ--SRLPPHLQQQQQ
C8              LNGHLPTQAPMHGHHGQHGMQAQHVGSGMSQQQQ----SRLPPHLQQQQQ
C9              LNGHGATQAPMHGHHSQHGMQAQHVGSGMSQQQQ----SRLPPHLQQQQP
C10             LSGHVPSQAPMHGHHSQHGMQAQHVGSGMSQQQQQQQ-SRLPPHLQQQQQ
                *.** ..*****. :. ******** .**.****    **********  

C1              ----HHLQSQQQQPGGQQQQQHRKEooooooo
C2              ----HHLQSQQQQPGGQQQQQHRKEooooooo
C3              ---QHHLQSQQQQPGGQQQQQHRKEooooo--
C4              QQQQHHLQSQQQQPGGQQQQQHRKE-------
C5              ----HLLQSQQQQPGGQQQQQHRKEoo-----
C6              ----HLLQSQQQQPEGQQQQQHRKEooooo--
C7              Q---HHLQSQQQQPGGQQPQQHRKEoooo---
C8              QQ--HHLQSQQQQPGGQQQQQHRKEooooo--
C9              QQ--HHLQTQQQQPGGQQQQQHRKEoooooo-
C10             QQ--HHLQSQQQQPGGQQ-QQHRKEoo-----
                    * **:***** *** ******       




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/210/cnc-PP/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/210/cnc-PP/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/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  718 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/210/cnc-PP/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/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C4  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C5  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C6  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C7  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C8  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C9  Length  718 type PROTEIN Struct Unchecked

	Multi Core Mode: 72 processors:

	--- Process Method/Library/Aln S/opt/ADOPS/210/cnc-PP/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/210/cnc-PP/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/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C1  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C10 Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C2  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/input.fasta.prot.fasta.clustalw2_rs_0_0.fasta.aln Seq C3  Length  718 type PROTEIN Struct Unchecked
  Input File /opt/ADOPS/210/cnc-PP/batch/allfiles/tcoffee/i