--- EXPERIMENT NOTES
--- EXPERIMENT PROPERTIES
#Tue Mar 27 09:28:06 WEST 2018
codeml.models=0 1 2 3 7 8
mrbayes.mpich=
mrbayes.ngen=1000000
tcoffee.alignMethod=MUSCLE
tcoffee.params=
tcoffee.maxSeqs=0
codeml.bin=codeml
mrbayes.tburnin=2500
codeml.dir=/usr/bin/
input.sequences=
mrbayes.pburnin=2500
mrbayes.bin=mb
tcoffee.bin=t_coffee
mrbayes.dir=/usr/bin/
tcoffee.dir=
tcoffee.minScore=3
input.fasta=/opt/ADOPS/HIV1_A1/NEF_1_5/input.fasta
input.names=
mrbayes.params=
codeml.params=
--- PSRF SUMMARY
Estimated marginal likelihoods for runs sampled in files
"/opt/ADOPS/HIV1_A1/NEF_1_5/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/HIV1_A1/NEF_1_5/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/HIV1_A1/NEF_1_5/batch/allfiles/mrbayes/input.fasta.fasta.mrb.lstat)
Run Arithmetic mean Harmonic mean
--------------------------------------
1 -11723.13 -11766.51
2 -11720.67 -11773.11
--------------------------------------
TOTAL -11721.28 -11772.41
--------------------------------------
Model parameter summaries over the runs sampled in files
"/opt/ADOPS/HIV1_A1/NEF_1_5/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/opt/ADOPS/HIV1_A1/NEF_1_5/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/HIV1_A1/NEF_1_5/batch/allfiles/mrbayes/input.fasta.fasta.mrb.pstat".
95% HPD Interval
--------------------
Parameter Mean Variance Lower Upper Median min ESS* avg ESS PSRF+
------------------------------------------------------------------------------------------------------
TL{all} 7.327400 0.130925 6.614284 8.018524 7.313486 1047.23 1055.91 1.000
r(A<->C){all} 0.117437 0.000083 0.100352 0.135344 0.117422 688.54 798.57 1.000
r(A<->G){all} 0.298995 0.000364 0.261502 0.336299 0.298911 383.41 397.36 1.000
r(A<->T){all} 0.080099 0.000059 0.065343 0.095485 0.080198 747.86 855.92 1.000
r(C<->G){all} 0.064457 0.000058 0.050485 0.079787 0.064376 642.53 779.64 1.000
r(C<->T){all} 0.340994 0.000425 0.304057 0.383317 0.340288 366.90 390.36 1.000
r(G<->T){all} 0.098019 0.000090 0.080010 0.116171 0.097682 597.09 723.85 1.000
pi(A){all} 0.353734 0.000157 0.328806 0.377234 0.353804 343.03 481.23 1.000
pi(C){all} 0.215774 0.000109 0.195495 0.236781 0.215391 601.13 636.89 1.001
pi(G){all} 0.247046 0.000125 0.225023 0.268651 0.247070 664.18 694.05 1.000
pi(T){all} 0.183447 0.000088 0.164603 0.201215 0.183534 396.06 550.21 1.000
alpha{1,2} 0.539130 0.002878 0.437535 0.642162 0.535721 1170.64 1179.69 1.000
alpha{3} 2.002550 0.095602 1.441311 2.617415 1.975082 1221.34 1361.17 1.000
pinvar{all} 0.090257 0.000649 0.039403 0.139021 0.089827 1035.47 1118.47 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 -9416.99033
Model 2: PositiveSelection -9381.106536
Model 0: one-ratio -9898.386785
Model 3: discrete -9364.125537
Model 7: beta -9374.770327
Model 8: beta&w>1 -9341.923913
Model 0 vs 1 962.7929100000001
Model 2 vs 1 71.76758800000243
Additional information for M1 vs M2:
Naive Empirical Bayes (NEB) analysis
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: 02_AG.CM.07.BS66.JX244994_)
Pr(w>1) post mean +- SE for w
10 K 1.000** 3.255
156 V 0.998** 3.250
162 K 1.000** 3.255
172 L 1.000** 3.255
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: 02_AG.CM.07.BS66.JX244994_)
Pr(w>1) post mean +- SE for w
10 K 1.000** 3.319 +- 0.429
156 V 0.997** 3.311 +- 0.445
162 K 1.000** 3.319 +- 0.429
172 L 1.000** 3.318 +- 0.430
Model 8 vs 7 65.69282799999928
Additional information for M7 vs M8:
Naive Empirical Bayes (NEB) analysis
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: 02_AG.CM.07.BS66.JX244994_)
Pr(w>1) post mean +- SE for w
10 K 1.000** 2.870
117 T 0.542 1.991
156 V 0.997** 2.864
162 K 1.000** 2.870
172 L 1.000** 2.869
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: 02_AG.CM.07.BS66.JX244994_)
Pr(w>1) post mean +- SE for w
10 K 1.000** 2.609 +- 0.314
117 T 0.803 2.223 +- 0.668
156 V 0.999** 2.607 +- 0.318
162 K 1.000** 2.609 +- 0.314
168 R 0.565 1.819 +- 0.785
172 L 1.000** 2.609 +- 0.314
>C1
MGGKWSKSSIVGWPKVRERIAQTPVAAPGVGAVSQDLAKHGAITSSNTAS
TNSACAWLEAQEDDEVGFPVRPQVPLRPMTYKDAVDLSHFLKEKGGLEGL
IYSKRRQEILDLWVYHTQGIFPDWQNYTPGPGTRFPLTFGWCFKLVPLDP
QEVEEANEGENNSLLHPVCQHGMEDEDREVLVWKFDSKLALKHRAQELHP
EFYKDCooooooooooo
>C2
MGGKWSKSSLVGWPAVRERMRRTPVAEKVGTAAEGVGTASQDLDKHGALT
TSNTASNNAACAWLEAQEEGGGEEVGFPVRPQVPLRPMTYKAAFDLGFFL
KEKGGLDGLIYSKKRQEILDLWVYNTQGFFPDWQNYTPGPGVRYPLTFGW
CYKLVPVDPKEVEEANEGENNSLLHPMSLHGMEDEEGEVLRWKFDSSLAR
RHLARELHPEWYKDooo
>C3
MGNKWSKSWPTIRDRMKRTNPAAERVEAAPQAAEGVGAASQDLDKYGALT
SSNTAGNNADCAWLEAQEQDEDVGFPVRPQVPLRPMTFKGAFDLGWFLKE
KGGLEGLIYSPKRQKILDLWVYHTQGYFPDWQNYTPGPGVRYPLTFGWPF
KLVPVDPREVEEANKGENNCLLHPISQHGMEDEHGEVLMWKFDSQLTRRH
LARELHPGFYKDCoooo
>C4
MGGKWSKSSIVGWPQIRDRIRQTPAAAERVTPAAAEGVGAVSRDLDKHGA
ITSSNMNNADEVWLRAQEEEGEGEVGFPVRPQVPLRPMTYKGAFDLSFFL
REKGGLDGLVYSRKRQEILDLWVYNTQGYFPDWQNYTPGPGTRYPLCFGW
CFKLVPVDPRDVEENNKGEDKCLLHPMSQHGADDEDREVLIWKFDSSLAR
QHRARELHPEFFKDCoo
>C5
MGGKWSRSSIVGWPQIREKIRQTEPAAEGVGAASQDLDKYGALTSSNTDT
NNADCAWLRAQEEEGEVGFPVKPQVPLRPMTYKGAFDLSFFLREKGGLEG
LIYSKKRQEILDLWVYHTQGYFPDWQNYTSGPGERFPLTFGWCFKLVPVD
PREVEEANEGEDNCLLHPMCQYGMEDEHREVLKWKFDSSLAHRHMARELR
PEFYKDCoooooooooo
>C6
MGGKWSKRSMSGWPTVREKMRRAEPAAEPAAEGVGAASRDLERHGALTSS
NTVTNNAACAWLEAQEDKEVGFPVRPQVPLRPMTHSAAIDLSHFLRKEGG
LEGMIHSQRRQEILDLWVYHTQGFFPDWQNYTPGPGVRYPLCFGWCFKLV
PVEPEEGENNTLLHPASLHGMDSEGEVLQWKFDSRLAFHHIAREMHPEYF
KDCoooooooooooooo
>C7
MGGKWSKRRRDDWPAVREKMENIEPVAEGVGAVSRDLGKHGAITSSNTPT
NNAALAWLEAQEEEEVGFPVRPQVPLRPMDYRGALDLSHFLRKEGGLEGL
IYSQQRQDVLDLWVYHTQGYFPDWQNYTPGPGTRYPLTLGWCFKLVPVEP
DNGEENSTLLHPASLHGMDDPEKEVLQWKFDSSLAFHHVARELHPEYYKN
Coooooooooooooooo
>C8
MGGKWSKSSIVGWPAIRERIRRTAPATDRVPAADGVGAASRDLEKHGAIT
SSNTTHTNPDCAWLEAQKEDEEEVGFPVRPQVPLRPMTYKGALDLSHFLK
EKGGLEGLIWSRKRQEILDLWVYNTQGYFPDWQNYTPGPGIRYPLTFGWC
FQLVPVDPKEVEEDTEGENNCLLHPMCQHGTDDPEGEVLMWKFDSRLAFE
HKAKLKHPEYYKDCooo
>C9
MGGKWSKCTGWAAVRERLERAEPAAKGVGPASRDLERHGALTSSNTAATN
ADCAWLEAQQEEEEVGFPVRPQVPLRPMTFKAALDLSHFLKEKGGLEGLI
YSQQRKDILDLWVYNTQGFFPDWQNYTPGPGIRYPLTFGWCFKLVPVEQE
EVEEANEGENNVLLHPMSQHGMDDPEKEVLRFKFDSRLAFHHVAREIHPE
YYKNooooooooooooo
>C10
MGGKWSKSSIVGWPKVRDRMRQTPPAANPPAAKGVGAVSQDLAKHGAITS
SNTASTNADCAWLEAQEDEDVGFPVRPQVPLRPMTYKAAFDLSHFLKEKG
GLDGLIYSKQRQEILDLWVYHTQGFFPDWQNYTPGPGIRYPLTFGWCFKL
VPLDPTEVEEANKEENNSLLHPICQHGMEDEDREVLVWKFDSKLALKHRA
QELHPEFYKDCoooooo
>C11
MGNKWSKSSIVGWANVRERMRRTEPAAERMRRTEPAAEGVGAASRDLDRY
GALTTSNTAHNNADCAWLQAQEEEEEVGFPVRPQVPLRPMTFKAAFDLSF
FLKEKGGLEGLIWSKRRQEILDLWVYHTQGFFPDWQNYTPGPGVRYPLTF
GWCFKLVPVDPSEVEEANKGENNCLLHPMSQHGIEDEEGEVLKWVFDSSL
ARRHLAREKHPEYYKDC
>C12
MGGKWSKRGIPGWDTIRERMRRTEPRTEPAAEGVGAVSRDLEQRGAVTTS
NTASNNAACAWLEAQGEEEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGG
LEGLIYSQKRQDILDLWVYHTQGYFPDWQNYTPGPGVRFPLTFGWCFKLV
PVEPEKVEEATAGENNCLLHPANLHGMDDPEGEVLEWRFDSRLAFHHMAR
EKHPEYYKDCooooooo
>C13
MGAKWSKSSLVGWPAIRERIRRTEPAAEGVGAASQDLDKYGALTTSNTVS
NNAACAWLQAQEEEEEVGFPVRPQVPLRPMTYKGALDLSFFLKEKGGLDG
LVHSQKRQDILDLWVYHTQGFFPDWQNYTPGPGVRYPLTFGWLYKLVPVD
PEEVEEATEGEGNCLLHPINQHGMDDADREVLRWKFDSQLARRHMARELH
PEYYKDCoooooooooo
>C14
MGGNWSKSSIVGWPRVRERIRQTPPAAEGVGATSQDLDKHGAVTSSNINS
ADSVWLRAQEEEDEGVGFPVKPQVPLRPMTFKGAFDLSFFLKEKGGLDGL
IYSKKRQEILDLWVYNTQGFFPDWQNYTPGPGIRYPLCFGWCFKLVPVDP
REAEEDTKGESSCLLHPISQHGLEDEEREVLMWKFDSALARKHIAREQHP
EYYKDCooooooooooo
>C15
MGGKWSKRSVVGWPTVRERMRRAEPAADGVGAVSRDLEKHGAITSSNTAT
NNAACAWLEAQEEDDVGFPVRPQVPLRPMTYKAAVDLSHFLKEKGGLEGL
IHSQKRQDILDLWIYHTQGFFPDWQNYTPGPGIRYPLCFGWCFKLVPVEP
DKVEEANEGENNSLLHPMSLHGMEDPEGEVLMWKFDSRLAFHHMARELHP
EYYKNCooooooooooo
>C16
MGGKWSKRSGDGWPTVRERMRRAEPAADGVGAASRDLEKHGAITSSNTAT
NNADCAWLEAQEEEEVGFPVKPQVPLRPMTYKAAVDLSHFLKEKGGLEGL
IHSQRRQDILDLWIYHTQGYFPDWQNYTPGPGIRYPLTFGWCYKLVPVEQ
EKVKEANEEENNSLLHPMSLHGMDDPEREVLQWRFDSRLAFHHVARELHP
EYFKNCooooooooooo
>C17
MGGKWSKRSMGGWSAVRERMRRTEPTAEPAATGVGPASRDLERHGAITSS
NTAATNADCAWLEAQEDEEVGFPVRPRVPTRPMTYKAAVDLSHFLKENGG
LEGLIYSQRRQDILDLWVYNTQGFFPDWQNYTPGPGIRYPLTFGWCFKLV
PVEPEKVEEANEGENNSLLHPLSLHGMEDPEKEVLVWRFDSRLAFQHVAR
ELHPEYFKNCooooooo
>C18
MGGKWSKMIGWPAVRERMQRAEPAADGVGVVSRDLEKHGAITSSNTAATN
ADCAWLEAQEDEEVGFPVKPQVPLRPMTYKASVDLSHFLKEKGGLEGLIY
SKKRQEILDLWVYHTQGYFPDWQNYTPGPGIRYPITFGWCFKLVPVEPDK
VEEANEGENNSLLHPISRHGMDDPEGEVLMWKFDSRLAFHHMAREMHPEY
YKNCooooooooooooo
>C19
MGNAWKKSSLVGWPAVRDRIHQTTPEIDPAPGVGKISRELAKEKAIPSKY
NSRNNEALAFLEAHEDEEVGFPVKPQVPLRPMTFKGAFDLSFFLNEKGGL
DGLVYSPERAEILDLWVYHTQGFFPDWQNYTPGPGVRWPLTFGWMFKLVP
VSEAEAEYMGNKDERAKLLHPACTYGFSDPHKEILVWKYDRSLGTQHVAL
MKHPELFIKDooooooo
>C20
MGGKWSKSKREWSQVREGMRQAPAAAAGVGAVSQDLDKHGAVTSSNINNP
SCVWLEAHEDEGVGFPVRPQVPTRPMTFKAAFDLGYFLKEKGGLDGLVYS
KKRQEILDLWVYHTQGFFPDWQNYTPGPGIRYPLTFGWCYKLVPVDPSEI
EKANEGENNCLLHPISQHGMEDEDREVLVWKYDSHLAFKHVAREKHPEYY
KDCoooooooooooooo
>C21
MGAKWSKSSIVGWPNIRERMRRTEPAADGVGAVSQDLEKHGAITSSNTAA
TNADCAWLEAQEEEDVGFPVRPQVPLRPMTYKGAFDLSFFLKEKGGLEGL
IYSKKRQEILDLWVYHTQGYFPDWQNYTPGPGVRFPLTFGWCFKLVPVDQ
SEVEEANKGEDNCLLHPVCQHGMEDAHREVLVWKFDSQLAHRHRARELHP
EFYKNCooooooooooo
>C22
MGGKWSKSSIVGWPQVRERIRRTPPATKEVGAVSQDLDKHGAITSSNITN
EDCGGLRAQEEEDEGVGFPVRPQVPLRPMTFKGAFDLSFFLREKGGLEGL
IYSKRRQEILDLWVYHTQGYFPDWHNYTPGPGIRYPLCFGWCFKLVPVDP
REVEEDNKGENNCLLHHMSQHGIEDEEGEVLMWKFDSALARRHIAREQHP
EFYKDCooooooooooo
>C23
MGGKWSKSSIVGWPAIRERMRRAQPAADGVGAVSRDLEKHGAITSSNTAA
TNANVAWLEAQEEEEVGFPARPQVPLRPMTYKAAVDMSHFLKEKGGLEGL
IWSQRRQEILDLWVYHTQGYFPDWQNYTPGPGTRFPLTFGWCFKLVPVEP
DEVEEANKGENNSLLHPMSQHGMDDPEKEVLMWKFDSRLAFHHLARELHP
EYYKDCooooooooooo
>C24
MGGKWSKSSIVGWPTVRERMRRAQPAADGVGAASRDLEKHGALTSSNTAA
TNADCAWLEAREEEEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGGLEGL
IYSQKRKDILDLWVYHTQGYFPDWQNYTPGPGTRFPLTFGWCFKLVPVEP
DEGENNSLLHPISLHGMDDRREEVLVWKFDSRLAVHHMARELHPEYYKNC
ooooooooooooooooo
>C25
MGGKWSHSGWPEVRERMRRAPPPVAAAPGVGAVSQDLARHGAVTTSNINH
PSCNWLEAQEDEEVGFPVRPQVPLRPMTYKEAVDLSHFLKEKGGLDGLIY
SRKRQEILDLWVYHTQGIFPDWQNYTPGPGPRFPLTFGWCFKLVPVDPDE
VEKETEGENNSLLHPICQHGMDDEEREVLKWQFDSRLALKHLALEKHPEF
YKNCooooooooooooo
>C26
MGGKWSKSSIVGWPDVRERMRRTTPAAEGVGAVSQDLDKHGALTINNSVT
TNADCAWLEAQEEEGDVGFPVRPQVPLRPMTYKAAFDLSFFLKEKGGLDG
LIYSKKRQEILDLWVYHTQGFFPDWQCYTPGPGVRYPLTFGWCYKLVPVD
PVEVEEANKGENNCLLHPISQHGIEDEDREVLKWQFDSSLARKHLAREIH
PEYYKDCoooooooooo
>C27
MGGKWSKSSLVGWPRVRERMERAEPAADGVGAVSRDLGKHGAITSSNTAN
ADCVWLEAQEEEEVGFPVKPQVPLRPMTYKGALDLSHFLKEKGGLEGLIY
SQKRQDILDLWVYHTQGYFPDWQNYTPGPGTRFPLTFGWCFKLVPVDPKE
VEKANEGENNCLLHPMSQHGADDPEGEVLMWKFDSRLAYHHMAREKHPEY
YKDCooooooooooooo
>C28
MGGKWSKRRRVEWPEVRERIEQTPPAAVGVGAASQDLARHGAITSSNTAA
NNPNCAWLEAQEEDSEVGFPVRPQVPLRPMTFKGAFDLSFFLKEKGGLDG
LIYSKQRQDILDLWVYNTQGFFPDWQNYTPGPGTRFPLTFGWCFKLVPMD
PAEVEEATNGENNSLLHPINQHGMEDDDKEVLVWRFDSSLARRHIAREKH
PEFYKDCoooooooooo
>C29
MGGKWSKCSIVGWPEIRERMRRTEPAAEGVGAASQDLDKYGALTSSNTDT
NNAACAWLRAQEEEEEVGFPVRPQVPLRPMTYKGALDLSFFLKEKGGLEG
LVHSKRRQDILDLWVYNTQGYFPDWHNYTPGPGVRFPLTFGWCFKLVPVD
PREVEEANEGEDNCLLHPMCQHGMEDEHREVLKWKFDSHLAHRHMARELH
PEFYKDCoooooooooo
>C30
MGGKWSKGKLGGWPAIRERMRRTQPAAEEAGAASQDLAEQGALTSSNPDT
NNAACAGAGAQEEEEEVGFPVRPQVPLRPMTFEAAFDLSFFLKEKGGLDG
LIYSKKRQEILDLWVYNTQGYFPDWQNYTPGPGIRFPLTFGWCFKLVPVD
PREVEEANEGEDNRLLHPVCLHGMEDEHREVLKWEFDSHLAYRHWARELH
PEFYKNooooooooooo
>C31
MGGKWSKSSMGGWPNIRERIRRTEPAAEGVGAASQDLDKRGAFTTSNTAQ
NNADCAWLQAQEEDNEVGFPVRPQVPLRPMTYKAAFDLSFFLKEKGGLEG
LIWSKKRQDVLDLWVYNTQGFFPDWQNYTSGPGVRYPLTFGWCFKLVPVD
PREVEEANEGEDNCLLHPMSQHGMEDAEREVLKWVFDSSLARRHVARELH
PEYYKDCoooooooooo
>C32
MGGKWSKGGMGGWNAVRDRMRRTPAAEGVGAASRDLERHGAITSSNTAAN
NPDCAWLEAQEENEEVGFPVRPQVPLRPMTYKAAVDLSHFLKDKGGLEGL
TWSQKRQDILDLWVYNTQGYFPDWQNYTPGPGTRYPLTFGWCFKLVPVEP
EQVEEATVGETNNLLHPGSLHGMEDPEKEVLVWRFDSKLAFHHVAKELKP
EFFRDRooooooooooo
>C33
MGGNWSKRSIVGWPEVRERIRRTSPAEGVGAASQDLGRHGAITSSNTAHT
NPDCAWLEAQEDEEVGFPVRPQVPLRPMTFKGAFDLSFFLKEKGGLDGLI
YSKKRQEILDLWVHNTQGFFPDWQNYTPGPGTRFPLTFGWCYKLVPVDPK
EVEENTRGENSCLLHPMCLHGAEDDEGEVLMWKFDSSLARRHVARERHPE
FYKDCoooooooooooo
>C34
MGGKWSKSSVPGWAVVRERIRGTDPATERVRTAEGVGAVSQDLDKYGAIT
INNTATNNEACARLEAQEQEEEVGFPVRPQVPLRPMTYKGAFDLSFFLKE
KGGLEGLIYSERRKEILDLWVYHTQGYFPDWQCYTPGPGVRYPLTFGWCF
KLVPVDPREVEEANKGESNCLLHPLHQHGIEDDHREVLIWKFDSQLARRH
LAREKHPEFYKDCoooo
>C35
MGGKWSKSSIVGWPEVRERLRRTPAAAPGVGAVSQDLDKHGAITSSNVNH
PSCVWLEAQEEEEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGGLDGLIY
SRKRQEILDLWVYNTQGYFPDWQNYTPGPGIRYPLTFGWCYKLVPVEPDE
VEKATEGENNSLLHPICQHGMDDEEKEVLIWKFDSRLALRHRAQEMHPEY
YKNCooooooooooooo
>C36
MGSKWSKSSIVGWPEVRERIRQTPPAARGVGAVSQDLEKHGAITSSNINH
PSCAWLEAQEEEEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGGLDRLIY
SRKRQEILDLWVYNTQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVSPEE
VERETEGENNSLLHPMCLHGMDDEERETLRWEFDSRLALRHRAQELHPEF
YKDCooooooooooooo
>C37
MGGKWSKSSLVGWPQVRERMRQTPPAATGVGAVSQDLDRHGAITSSNTPT
TNAACAWLEAQEDEEVGFPVKPQVPLRPMTFKAAFDLSFFLKEKGGLDGL
IYSKKRQEILDLWVYHTQGFFPDWQNYTPGPGTRYPLTFGWCFKLVPMDS
AEVEKANEGENNSLLHPICQHGMEDEEREVLIWTFDRSLAVKHKARELHP
EFYKDCooooooooooo
>C38
MGSKWSKSSIVGWPEVRERIRQTPAAATGVGAVSQDLDKYGAVTSSNINH
PSCTWLEAQEDGEVGFPVRPQVPLRPMTYKAAVDLSHFLKEKGGLDGLIY
SRKRQEILDLWVHHTQGFFPDWQEYTPGPGIRFPLTFGWCFKLVPVDPAE
VEKANEGENNSLLHPICQHGMDDGERETLMWKFDSRLAFEHKARELHPEF
YKDCooooooooooooo
>C39
MGGKWSKSSIVGWPQVRERMRQTPPAAEGVGAVSQDLDKYGAITSSNINH
PSCTWLEAQEEEEVGFPVRPQVPLRPMTYKGALDLSHFLKEKGGLDRLIY
SRKRQEILDLWVYNTQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVDPEE
VEKATEGENNCLLHPISQHGMEDEERETLMWQFDSRLALTHRAQELHPEF
YKNCooooooooooooo
>C40
MGQKWVNSRGLGWRKEREKMKKPDPPPEGGGPPFGARENQGPFPITIPPV
TNPVGPGLETPGEGEGGFPFGLRVPLGPKTYKGAVDLSHFLKEKGGLEGM
IYSQRRQDILDLWIYHTQGYFPDWQKYTPGPGNRFPLTFGWCFKLVPVDK
EKVEEASEKETNNFLAPVSMHGMDDPEGEVLQWKFDSRLAFHHMAKEVHP
EFYKNCooooooooooo
>C41
MGGKWSKSSIVGWPEIRERMRRAPSAAAPGVGAVSQDLAKHGAVTSSNIN
NPSCVWLEAQEEEEVGFPVRPQVPLRPMTYKAAVDLSHFLKEKGGLDGLI
YSRKRQEILDLWVHHIQGFFPDWQNYTPGPGIRFPLTFGWCFKLVPVDPD
EVEKDTEGENNSLLHPICQHGMDDEEKEVLKWKFDSRLALKHLACEKHPE
FYKDCoooooooooooo
>C42
MGGKWSKSSMVGWPKVRERMRRAEPAADGVGAVSRDLEKHGAITSSNTAA
NNAACAWLEAQEDEDVGFPVRPQVPLRPMTYKAAIDLSHFLKEKGGLEGL
IYSQKRQDILDLWVYHTQGFFPDWQNYTPGPGVRYPLTFGWCFKLVPVDP
EKVEEANEGENNSLLHPMSLHGMEDTEKEVLAWRFDSLLAFRHMAREMHP
EYYKDCooooooooooo
>C43
MGGKWSKSSIVGWPAIRERMRRAEPAADGVGAVSRDLEERGAITSSNTTN
AACVWLQAQEDEEVGFPVKPQVPLRPMTYKGALDLSHFLKEKGGLEGLIH
SQKRQDILDLWVYHTQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVEPDT
EENSLLLHPMGLHGAEDTEREVLIWKFDSSLAFHHKARELHPEYYKDCoo
ooooooooooooooooo
>C44
MGGKWSKSSIVGWPATRERIRQTEPAAEGVGAASQDLDKHGALTTSNTAH
NNADCAWLQTQEEEGEVGFPVRPQVPLRPMTFKAAFDLSFFLKEKGGLEG
LIWSKKRQEILDLWVYNTQGFFPDWQNYTSGPGVRYPLTFGWCFKLVPVD
PREVEEANEGENNCLLHPMSQHGAEDESREVLMWKFDSSLARRHLARELH
PEYYKDCoooooooooo
>C45
MGSKWSKSSIVGWPEVRERIRQTPPAAKGVGAVSQDLEKHGAVTSSNINH
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>C46
MGGKWSKSSIVGWPAVRERMRRTEPAAVGVGAASRDLEKHGALTSSNTST
TNAACAWLEAQEEEEVGFPVRPQVPLRPMTYKGAVDLGFFLKEKGGLEGL
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>C47
MGGKWSKSSIVGWPEIRERMRRTEPAADGVGAASQDLDKYGALTSSNTVA
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>C48
MGEQLSSSSIVGWPEIRERMRRTPAARVRQTEPAAVGVGAASQDLDKYGA
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GLIYSKKRQEILDLWVYHKQGYFPDWQNYTPGPGVRFPLTFGWCFKLVPV
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HPEYYKDCooooooooo
>C49
MGGKWSKSSIVGWPAVRERLRRTEPAAEGVGAASQDLEKHGALTSSNTAA
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PEYYKDCoooooooooo
>C50
MGNIFGRWAGATEVLRRLHAAPAHDGQASKELHERGGLTNNTIGTEKDVA
HYSQDHTEEEVGFPVRPAVPMRPMTEKLATDLSWFLKEKGGLDGLIYSTR
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PROGRAM: T-COFFEE Version_10.00.r1613 (2013-10-22 15:49:09 - Revision 1613 - Build 432)
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Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
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Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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Master Sequences Identified
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Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
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Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
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Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
Multi Core Mode: 8 processors:
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Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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xxx Retrieved Mproba_pair
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Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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--- Process Method/Library/Aln Mproba_pair
xxx Retrieved Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
xxx Retrieved Mproba_pair
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INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
--- Process Method/Library/Aln Mproba_pair
xxx Retrieved Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
xxx Retrieved Mproba_pair
All Methods Retrieved
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Library Total Size: [780938]
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INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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--- Process Method/Library/Aln Mproba_pair
xxx Retrieved Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
xxx Retrieved Mproba_pair
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Library Total Size: [780938]
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INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
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--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
--- Process Method/Library/Aln Mproba_pair
xxx Retrieved Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
xxx Retrieved Mproba_pair
All Methods Retrieved
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Library Total Size: [780938]
Library Relaxation: Multi_proc [8]
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INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
Multi Core Mode: 8 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
--- Process Method/Library/Aln Mproba_pair
xxx Retrieved Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
xxx Retrieved Mproba_pair
All Methods Retrieved
MANUAL PENALTIES: gapopen=0 gapext=0
Library Total Size: [780938]
Library Relaxation: Multi_proc [8]
-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) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
Multi Core Mode: 8 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
--- Process Method/Library/Aln Mproba_pair
xxx Retrieved Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
xxx Retrieved Mproba_pair
All Methods Retrieved
MANUAL PENALTIES: gapopen=0 gapext=0
Library Total Size: [780938]
Library Relaxation: Multi_proc [8]
-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) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 50 SEQUENCES [PROTEIN]
Multi Core Mode: 8 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
--- Process Method/Library/Aln Mproba_pair
xxx Retrieved Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
xxx Retrieved Mproba_pair
All Methods Retrieved
MANUAL PENALTIES: gapopen=0 gapext=0
Library Total Size: [780938]
Library Relaxation: Multi_proc [8]
Relaxation Summary: [780938]--->[647673]
UN-WEIGHTED MODE: EVERY SEQUENCE WEIGHTS 1
OUTPUT RESULTS
#### File Type= MSA Format= score_ascii Name= input.prot.fasta.muscle_rs_0_0.fasta.score_ascii
#### File Type= MSA Format= html Name= input.prot.fasta.muscle_rs_0_0.fasta.html
#### File Type= MSA Format= score_ascii Name= input.prot.fasta.muscle_rs_0_0.fasta.score_ascii
# Command Line: t_coffee -infile input.prot.fasta.muscle_rs_0_0.fasta.aln -output score_ascii -special_mode evaluate -evaluate_mode t_coffee_fast [PROGRAM:T-COFFEE]
# T-COFFEE Memory Usage: Current= 32.055 Mb, Max= 47.689 Mb
# Results Produced with T-COFFEE Version_10.00.r1613 (2013-10-22 15:49:09 - Revision 1613 - Build 432)
# T-COFFEE is available from http://www.tcoffee.org
# Register on: https://groups.google.com/group/tcoffee/
FORMAT of file input.prot.fasta.muscle_rs_0_0.fasta.ipi_i.fasta Not Supported[FATAL:T-COFFEE]
CLUSTAL W (1.83) multiple sequence alignment
C1 MGGKWSKWPKVRERIAQTAPGVGAVSQDLAKHGATNSACAWLEAQEDDEV
C2 MGGKWSKWPAVRERMRRTAEGVGTASQDLDKHGANNAACAWLEAQEEEEV
C3 MGNKWSKWPTIRDRMKRTAEGVGAASQDLDKYGANNADCAWLEAQEQEDV
C4 MGGKWSKWPQIRDRIRQTAEGVGAVSRDLDKHGANNADEVWLRAQEEGEV
C5 MGGKWSRWPQIREKIRQTAEGVGAASQDLDKYGANNADCAWLRAQEEGEV
C6 MGGKWSKWPTVREKMRRAAEGVGAASRDLERHGANNAACAWLEAQEDKEV
C7 MGGKWSKWPAVREKMENIAEGVGAVSRDLGKHGANNAALAWLEAQEEEEV
C8 MGGKWSKWPAIRERIRRTADGVGAASRDLEKHGATNPDCAWLEAKEDEEV
C9 MGGKWSKWAAVRERLERAAKGVGPASRDLERHGATNADCAWLEAQEEEEV
C10 MGGKWSKWPKVRDRMRQTAKGVGAVSQDLAKHGATNADCAWLEAQEDEDV
C11 MGNKWSKWANVRERMRRTAEGVGAASRDLDRYGANNADCAWLQAQEEEEV
C12 MGGKWSKWDTIRERMRRTAEGVGAVSRDLEQRGANNAACAWLEAQGEEEV
C13 MGAKWSKWPAIRERIRRTAEGVGAASQDLDKYGANNAACAWLQAQEEEEV
C14 MGGNWSKWPRVRERIRQTAEGVGATSQDLDKHGANSADSVWLRAQEEEGV
C15 MGGKWSKWPTVRERMRRAADGVGAVSRDLEKHGANNAACAWLEAQEEDDV
C16 MGGKWSKWPTVRERMRRAADGVGAASRDLEKHGANNADCAWLEAQEEEEV
C17 MGGKWSKWSAVRERMRRTATGVGPASRDLERHGATNADCAWLEAQEDEEV
C18 MGGKWSKWPAVRERMQRAADGVGVVSRDLEKHGATNADCAWLEAQEDEEV
C19 MGNAWKKWPAVRDRIHQTAPGVGKISRELAKEKANNEALAFLEAHEDEEV
C20 MGGKWSKWSQVREGMRQAAAGVGAVSQDLDKHGANNPSCVWLEAHEDEGV
C21 MGAKWSKWPNIRERMRRTADGVGAVSQDLEKHGATNADCAWLEAQEEEDV
C22 MGGKWSKWPQVRERIRRTTKEVGAVSQDLDKHGATNEDCGGLRAQEEEGV
C23 MGGKWSKWPAIRERMRRAADGVGAVSRDLEKHGATNANVAWLEAQEEEEV
C24 MGGKWSKWPTVRERMRRAADGVGAASRDLEKHGATNADCAWLEAREEEEV
C25 MGGKWSHWPEVRERMRRAAPGVGAVSQDLARHGANHPSCNWLEAQEDEEV
C26 MGGKWSKWPDVRERMRRTAEGVGAVSQDLDKHGATNADCAWLEAQEEGDV
C27 MGGKWSKWPRVRERMERAADGVGAVSRDLGKHGAANADCVWLEAQEEEEV
C28 MGGKWSKWPEVRERIEQTAVGVGAASQDLARHGANNPNCAWLEAQEESEV
C29 MGGKWSKWPEIRERMRRTAEGVGAASQDLDKYGANNAACAWLRAQEEEEV
C30 MGGKWSKWPAIRERMRRTAEEAGAASQDLAEQGANNAACAGAGAQEEEEV
C31 MGGKWSKWPNIRERIRRTAEGVGAASQDLDKRGANNADCAWLQAQEENEV
C32 MGGKWSKWNAVRDRMRRTAEGVGAASRDLERHGANNPDCAWLEAQEEEEV
C33 MGGNWSKWPEVRERIRRTAEGVGAASQDLGRHGATNPDCAWLEAQEDEEV
C34 MGGKWSKWAVVRERIRGTAEGVGAVSQDLDKYGANNEACARLEAQEQEEV
C35 MGGKWSKWPEVRERLRRTAPGVGAVSQDLDKHGANHPSCVWLEAQEEEEV
C36 MGSKWSKWPEVRERIRQTARGVGAVSQDLEKHGANHPSCAWLEAQEEEEV
C37 MGGKWSKWPQVRERMRQTATGVGAVSQDLDRHGATNAACAWLEAQEDEEV
C38 MGSKWSKWPEVRERIRQTATGVGAVSQDLDKYGANHPSCTWLEAQEDGEV
C39 MGGKWSKWPQVRERMRQTAEGVGAVSQDLDKYGANHPSCTWLEAQEEEEV
C40 MGQKWVNWRKEREKMKKPPEGGGPPFGARENQGPTNPVGPGLETPGEGEG
C41 MGGKWSKWPEIRERMRRAAPGVGAVSQDLAKHGANNPSCVWLEAQEEEEV
C42 MGGKWSKWPKVRERMRRAADGVGAVSRDLEKHGANNAACAWLEAQEDEDV
C43 MGGKWSKWPAIRERMRRAADGVGAVSRDLEERGATNAACVWLQAQEDEEV
C44 MGGKWSKWPATRERIRQTAEGVGAASQDLDKHGANNADCAWLQTQEEGEV
C45 MGSKWSKWPEVRERIRQTAKGVGAVSQDLEKHGANHPSCVWLEAQEEEEV
C46 MGGKWSKWPAVRERMRRTAVGVGAASRDLEKHGATNAACAWLEAQEEEEV
C47 MGGKWSKWPEIRERMRRTADGVGAASQDLDKYGANNAACAWLEAQEEEEV
C48 MGEQLSSWPEIRERMRRTAVGVGAASQDLDKYGATNADCAWLQAQEEGEV
C49 MGGKWSKWPAVRERLRRTAEGVGAASQDLEKHGATNADCAWLEAQEEDEV
C50 MGNIFGRWAGATEVLRRLPAHDGQASKELHERGGEKDVAHYSQDHTEEEV
** * : : . * . :
C1 GFPVRPQVPLRPMTYKDAVDLSHFLKEKGGLEGLIYSKRRQEILDLWVYH
C2 GFPVRPQVPLRPMTYKAAFDLGFFLKEKGGLDGLIYSKKRQEILDLWVYN
C3 GFPVRPQVPLRPMTFKGAFDLGWFLKEKGGLEGLIYSPKRQKILDLWVYH
C4 GFPVRPQVPLRPMTYKGAFDLSFFLREKGGLDGLVYSRKRQEILDLWVYN
C5 GFPVKPQVPLRPMTYKGAFDLSFFLREKGGLEGLIYSKKRQEILDLWVYH
C6 GFPVRPQVPLRPMTHSAAIDLSHFLRKEGGLEGMIHSQRRQEILDLWVYH
C7 GFPVRPQVPLRPMDYRGALDLSHFLRKEGGLEGLIYSQQRQDVLDLWVYH
C8 GFPVRPQVPLRPMTYKGALDLSHFLKEKGGLEGLIWSRKRQEILDLWVYN
C9 GFPVRPQVPLRPMTFKAALDLSHFLKEKGGLEGLIYSQQRKDILDLWVYN
C10 GFPVRPQVPLRPMTYKAAFDLSHFLKEKGGLDGLIYSKQRQEILDLWVYH
C11 GFPVRPQVPLRPMTFKAAFDLSFFLKEKGGLEGLIWSKRRQEILDLWVYH
C12 GFPVRPQVPLRPMTYKGALDLSHFLKEKGGLEGLIYSQKRQDILDLWVYH
C13 GFPVRPQVPLRPMTYKGALDLSFFLKEKGGLDGLVHSQKRQDILDLWVYH
C14 GFPVKPQVPLRPMTFKGAFDLSFFLKEKGGLDGLIYSKKRQEILDLWVYN
C15 GFPVRPQVPLRPMTYKAAVDLSHFLKEKGGLEGLIHSQKRQDILDLWIYH
C16 GFPVKPQVPLRPMTYKAAVDLSHFLKEKGGLEGLIHSQRRQDILDLWIYH
C17 GFPVRPRVPTRPMTYKAAVDLSHFLKENGGLEGLIYSQRRQDILDLWVYN
C18 GFPVKPQVPLRPMTYKASVDLSHFLKEKGGLEGLIYSKKRQEILDLWVYH
C19 GFPVKPQVPLRPMTFKGAFDLSFFLNEKGGLDGLVYSPERAEILDLWVYH
C20 GFPVRPQVPTRPMTFKAAFDLGYFLKEKGGLDGLVYSKKRQEILDLWVYH
C21 GFPVRPQVPLRPMTYKGAFDLSFFLKEKGGLEGLIYSKKRQEILDLWVYH
C22 GFPVRPQVPLRPMTFKGAFDLSFFLREKGGLEGLIYSKRRQEILDLWVYH
C23 GFPARPQVPLRPMTYKAAVDMSHFLKEKGGLEGLIWSQRRQEILDLWVYH
C24 GFPVRPQVPLRPMTYKGALDLSHFLKEKGGLEGLIYSQKRKDILDLWVYH
C25 GFPVRPQVPLRPMTYKEAVDLSHFLKEKGGLDGLIYSRKRQEILDLWVYH
C26 GFPVRPQVPLRPMTYKAAFDLSFFLKEKGGLDGLIYSKKRQEILDLWVYH
C27 GFPVKPQVPLRPMTYKGALDLSHFLKEKGGLEGLIYSQKRQDILDLWVYH
C28 GFPVRPQVPLRPMTFKGAFDLSFFLKEKGGLDGLIYSKQRQDILDLWVYN
C29 GFPVRPQVPLRPMTYKGALDLSFFLKEKGGLEGLVHSKRRQDILDLWVYN
C30 GFPVRPQVPLRPMTFEAAFDLSFFLKEKGGLDGLIYSKKRQEILDLWVYN
C31 GFPVRPQVPLRPMTYKAAFDLSFFLKEKGGLEGLIWSKKRQDVLDLWVYN
C32 GFPVRPQVPLRPMTYKAAVDLSHFLKDKGGLEGLTWSQKRQDILDLWVYN
C33 GFPVRPQVPLRPMTFKGAFDLSFFLKEKGGLDGLIYSKKRQEILDLWVHN
C34 GFPVRPQVPLRPMTYKGAFDLSFFLKEKGGLEGLIYSERRKEILDLWVYH
C35 GFPVRPQVPLRPMTYKGALDLSHFLKEKGGLDGLIYSRKRQEILDLWVYN
C36 GFPVRPQVPLRPMTYKGALDLSHFLKEKGGLDRLIYSRKRQEILDLWVYN
C37 GFPVKPQVPLRPMTFKAAFDLSFFLKEKGGLDGLIYSKKRQEILDLWVYH
C38 GFPVRPQVPLRPMTYKAAVDLSHFLKEKGGLDGLIYSRKRQEILDLWVHH
C39 GFPVRPQVPLRPMTYKGALDLSHFLKEKGGLDRLIYSRKRQEILDLWVYN
C40 GFPFGLRVPLGPKTYKGAVDLSHFLKEKGGLEGMIYSQRRQDILDLWIYH
C41 GFPVRPQVPLRPMTYKAAVDLSHFLKEKGGLDGLIYSRKRQEILDLWVHH
C42 GFPVRPQVPLRPMTYKAAIDLSHFLKEKGGLEGLIYSQKRQDILDLWVYH
C43 GFPVKPQVPLRPMTYKGALDLSHFLKEKGGLEGLIHSQKRQDILDLWVYH
C44 GFPVRPQVPLRPMTFKAAFDLSFFLKEKGGLEGLIWSKKRQEILDLWVYN
C45 GFPVRPQVPLRPMTYKGAFDLSHFLKEKGGLDGLIYSRKRQDILDLWVYN
C46 GFPVRPQVPLRPMTYKGAVDLGFFLKEKGGLEGLIYSKKRQEILDLWVYH
C47 GFPVRPQVPLRPMTYKAAFDLGFFLKEKGGLDGLIYSKKRQEILDLWVYH
C48 GFPVRPQVPLRPMTYKGAVDLSFFLKEKGGLEGLIYSKKRQEILDLWVYH
C49 GFPVRPQVPLRPMTYKGAFDLSFFLKEKGGLEGLIYSKKRQEILDLWVYH
C50 GFPVRPAVPMRPMTEKLATDLSWFLKEKGGLDGLIYSTRRAAILDTWMYN
*** ** * : *:. **..:***: : * .* :** *:::
C1 TQGIFPDWQNYTPGPGTRFPLTFGWCFKLVPLDPENNSLLHPVCQHGMDE
C2 TQGFFPDWQNYTPGPGVRYPLTFGWCYKLVPVDPENNSLLHPMSLHGMDE
C3 TQGYFPDWQNYTPGPGVRYPLTFGWPFKLVPVDPENNCLLHPISQHGMDE
C4 TQGYFPDWQNYTPGPGTRYPLCFGWCFKLVPVDPEDKCLLHPMSQHGADE
C5 TQGYFPDWQNYTSGPGERFPLTFGWCFKLVPVDPEDNCLLHPMCQYGMDE
C6 TQGFFPDWQNYTPGPGVRYPLCFGWCFKLVPVEPENNTLLHPASLHGMDS
C7 TQGYFPDWQNYTPGPGTRYPLTLGWCFKLVPVEPENSTLLHPASLHGMDP
C8 TQGYFPDWQNYTPGPGIRYPLTFGWCFQLVPVDPENNCLLHPMCQHGTDP
C9 TQGFFPDWQNYTPGPGIRYPLTFGWCFKLVPVEQENNVLLHPMSQHGMDP
C10 TQGFFPDWQNYTPGPGIRYPLTFGWCFKLVPLDPENNSLLHPICQHGMDE
C11 TQGFFPDWQNYTPGPGVRYPLTFGWCFKLVPVDPENNCLLHPMSQHGIDE
C12 TQGYFPDWQNYTPGPGVRFPLTFGWCFKLVPVEPENNCLLHPANLHGMDP
C13 TQGFFPDWQNYTPGPGVRYPLTFGWLYKLVPVDPEGNCLLHPINQHGMDA
C14 TQGFFPDWQNYTPGPGIRYPLCFGWCFKLVPVDPESSCLLHPISQHGLDE
C15 TQGFFPDWQNYTPGPGIRYPLCFGWCFKLVPVEPENNSLLHPMSLHGMDP
C16 TQGYFPDWQNYTPGPGIRYPLTFGWCYKLVPVEQENNSLLHPMSLHGMDP
C17 TQGFFPDWQNYTPGPGIRYPLTFGWCFKLVPVEPENNSLLHPLSLHGMDP
C18 TQGYFPDWQNYTPGPGIRYPITFGWCFKLVPVEPENNSLLHPISRHGMDP
C19 TQGFFPDWQNYTPGPGVRWPLTFGWMFKLVPVSEERAKLLHPACTYGFDP
C20 TQGFFPDWQNYTPGPGIRYPLTFGWCYKLVPVDPENNCLLHPISQHGMDE
C21 TQGYFPDWQNYTPGPGVRFPLTFGWCFKLVPVDQEDNCLLHPVCQHGMDA
C22 TQGYFPDWHNYTPGPGIRYPLCFGWCFKLVPVDPENNCLLHHMSQHGIDE
C23 TQGYFPDWQNYTPGPGTRFPLTFGWCFKLVPVEPENNSLLHPMSQHGMDP
C24 TQGYFPDWQNYTPGPGTRFPLTFGWCFKLVPVEPENNSLLHPISLHGMDR
C25 TQGIFPDWQNYTPGPGPRFPLTFGWCFKLVPVDPENNSLLHPICQHGMDE
C26 TQGFFPDWQCYTPGPGVRYPLTFGWCYKLVPVDPENNCLLHPISQHGIDE
C27 TQGYFPDWQNYTPGPGTRFPLTFGWCFKLVPVDPENNCLLHPMSQHGADP
C28 TQGFFPDWQNYTPGPGTRFPLTFGWCFKLVPMDPENNSLLHPINQHGMDD
C29 TQGYFPDWHNYTPGPGVRFPLTFGWCFKLVPVDPEDNCLLHPMCQHGMDE
C30 TQGYFPDWQNYTPGPGIRFPLTFGWCFKLVPVDPEDNRLLHPVCLHGMDE
C31 TQGFFPDWQNYTSGPGVRYPLTFGWCFKLVPVDPEDNCLLHPMSQHGMDA
C32 TQGYFPDWQNYTPGPGTRYPLTFGWCFKLVPVEPETNNLLHPGSLHGMDP
C33 TQGFFPDWQNYTPGPGTRFPLTFGWCYKLVPVDPENSCLLHPMCLHGADD
C34 TQGYFPDWQCYTPGPGVRYPLTFGWCFKLVPVDPESNCLLHPLHQHGIDD
C35 TQGYFPDWQNYTPGPGIRYPLTFGWCYKLVPVEPENNSLLHPICQHGMDE
C36 TQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVSPENNSLLHPMCLHGMDE
C37 TQGFFPDWQNYTPGPGTRYPLTFGWCFKLVPMDSENNSLLHPICQHGMDE
C38 TQGFFPDWQEYTPGPGIRFPLTFGWCFKLVPVDPENNSLLHPICQHGMDG
C39 TQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVDPENNCLLHPISQHGMDE
C40 TQGYFPDWQKYTPGPGNRFPLTFGWCFKLVPVDKETNNFLAPVSMHGMDP
C41 IQGFFPDWQNYTPGPGIRFPLTFGWCFKLVPVDPENNSLLHPICQHGMDE
C42 TQGFFPDWQNYTPGPGVRYPLTFGWCFKLVPVDPENNSLLHPMSLHGMDT
C43 TQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVEPENSLLLHPMGLHGADT
C44 TQGFFPDWQNYTSGPGVRYPLTFGWCFKLVPVDPENNCLLHPMSQHGADE
C45 TQGFFPDWQNYTPGPGIRYPLTFGWCFKLVPVDPENNSLLHPMCQHGMDE
C46 TQGFFPDWQNYTPGPGVRYPLTFGWPFKLVPVDPENNCLLHPISQHGIDE
C47 TQGYFPDWQNYTPGPGVRYPLTFGWCYKLVPVDQENNCLLHPMSLHGMDE
C48 KQGYFPDWQNYTPGPGVRFPLTFGWCFKLVPVDPENNCLLHPMSQQGFDA
C49 TQGYFPDWQNYTPGPGVRYPLTFGWCFKLVPVDPENNCLLHPLSQHGMDA
C50 TQGVFPDWQNYTPGPGVRYPLCRGWLFKLVPVTPERNILLHPANSHGRDP
** ****: **.*** *:*: ** ::***: * :* * *
C1 DREVLVWKFDSKLALKHRAQELHPEFYKDC
C2 EGEVLRWKFDSSLARRHLARELHPEWYKDo
C3 HGEVLMWKFDSQLTRRHLARELHPGFYKDC
C4 DREVLIWKFDSSLARQHRARELHPEFFKDC
C5 HREVLKWKFDSSLAHRHMARELRPEFYKDC
C6 EGEVLQWKFDSRLAFHHIAREMHPEYFKDC
C7 EKEVLQWKFDSSLAFHHVARELHPEYYKNC
C8 EGEVLMWKFDSRLAFEHKAKLKHPEYYKDC
C9 EKEVLRFKFDSRLAFHHVAREIHPEYYKNo
C10 DREVLVWKFDSKLALKHRAQELHPEFYKDC
C11 EGEVLKWVFDSSLARRHLAREKHPEYYKDC
C12 EGEVLEWRFDSRLAFHHMAREKHPEYYKDC
C13 DREVLRWKFDSQLARRHMARELHPEYYKDC
C14 EREVLMWKFDSALARKHIAREQHPEYYKDC
C15 EGEVLMWKFDSRLAFHHMARELHPEYYKNC
C16 EREVLQWRFDSRLAFHHVARELHPEYFKNC
C17 EKEVLVWRFDSRLAFQHVARELHPEYFKNC
C18 EGEVLMWKFDSRLAFHHMAREMHPEYYKNC
C19 HKEILVWKYDRSLGTQHVALMKHPELFKDo
C20 DREVLVWKYDSHLAFKHVAREKHPEYYKDC
C21 HREVLVWKFDSQLAHRHRARELHPEFYKNC
C22 EGEVLMWKFDSALARRHIAREQHPEFYKDC
C23 EKEVLMWKFDSRLAFHHLARELHPEYYKDC
C24 REEVLVWKFDSRLAVHHMARELHPEYYKNC
C25 EREVLKWQFDSRLALKHLALEKHPEFYKNC
C26 DREVLKWQFDSSLARKHLAREIHPEYYKDC
C27 EGEVLMWKFDSRLAYHHMAREKHPEYYKDC
C28 DKEVLVWRFDSSLARRHIAREKHPEFYKDC
C29 HREVLKWKFDSHLAHRHMARELHPEFYKDC
C30 HREVLKWEFDSHLAYRHWARELHPEFYKNo
C31 EREVLKWVFDSSLARRHVARELHPEYYKDC
C32 EKEVLVWRFDSKLAFHHVAKELKPEFFRDR
C33 EGEVLMWKFDSSLARRHVARERHPEFYKDC
C34 HREVLIWKFDSQLARRHLAREKHPEFYKDC
C35 EKEVLIWKFDSRLALRHRAQEMHPEYYKNC
C36 ERETLRWEFDSRLALRHRAQELHPEFYKDC
C37 EREVLIWTFDRSLAVKHKARELHPEFYKDC
C38 ERETLMWKFDSRLAFEHKARELHPEFYKDC
C39 ERETLMWQFDSRLALTHRAQELHPEFYKNC
C40 EGEVLQWKFDSRLAFHHMAKEVHPEFYKNC
C41 EKEVLKWKFDSRLALKHLACEKHPEFYKDC
C42 EKEVLAWRFDSLLAFRHMAREMHPEYYKDC
C43 EREVLIWKFDSSLAFHHKARELHPEYYKDC
C44 SREVLMWKFDSSLARRHLARELHPEYYKDC
C45 ERETLRWKFDSSLALKHRALELYPEFYKDC
C46 DREVLRWKFDSSLARRHMARELHPEYYKDC
C47 EREVLKWQFDSSLARRHMARELHPEYYKDC
C48 HGEVLQWKFDSQLARRHMARELHPEYYKDC
C49 NREVLRWKFDSQLARRHMARELHPEYYKDC
C50 DGETLMWQFDTSLARRHIARERHPEYFKoo
* * : :* * * * * ::
FORMAT of file input.prot.fasta.muscle_rs_0_0.fasta.ipi_bs.fasta Not Supported[FATAL:T-COFFEE]
input.prot.fasta.muscle_rs_0_0.fasta.aln I:93 S:91 BS:94
# TC_SIMILARITY_MATRIX_FORMAT_01
# SEQ_INDEX C1 0
# SEQ_INDEX C2 1
# SEQ_INDEX C3 2
# SEQ_INDEX C4 3
# SEQ_INDEX C5 4
# SEQ_INDEX C6 5
# SEQ_INDEX C7 6
# SEQ_INDEX C8 7
# SEQ_INDEX C9 8
# SEQ_INDEX C10 9
# SEQ_INDEX C11 10
# SEQ_INDEX C12 11
# SEQ_INDEX C13 12
# SEQ_INDEX C14 13
# SEQ_INDEX C15 14
# SEQ_INDEX C16 15
# SEQ_INDEX C17 16
# SEQ_INDEX C18 17
# SEQ_INDEX C19 18
# SEQ_INDEX C20 19
# SEQ_INDEX C21 20
# SEQ_INDEX C22 21
# SEQ_INDEX C23 22
# SEQ_INDEX C24 23
# SEQ_INDEX C25 24
# SEQ_INDEX C26 25
# SEQ_INDEX C27 26
# SEQ_INDEX C28 27
# SEQ_INDEX C29 28
# SEQ_INDEX C30 29
# SEQ_INDEX C31 30
# SEQ_INDEX C32 31
# SEQ_INDEX C33 32
# SEQ_INDEX C34 33
# SEQ_INDEX C35 34
# SEQ_INDEX C36 35
# SEQ_INDEX C37 36
# SEQ_INDEX C38 37
# SEQ_INDEX C39 38
# SEQ_INDEX C40 39
# SEQ_INDEX C41 40
# SEQ_INDEX C42 41
# SEQ_INDEX C43 42
# SEQ_INDEX C44 43
# SEQ_INDEX C45 44
# SEQ_INDEX C46 45
# SEQ_INDEX C47 46
# SEQ_INDEX C48 47
# SEQ_INDEX C49 48
# SEQ_INDEX C50 49
# PW_SEQ_DISTANCES
BOT 0 1 79.81 C1 C2 79.81
TOP 1 0 79.81 C2 C1 79.81
BOT 0 2 76.59 C1 C3 76.59
TOP 2 0 76.59 C3 C1 76.59
BOT 0 3 77.18 C1 C4 77.18
TOP 3 0 77.18 C4 C1 77.18
BOT 0 4 80.47 C1 C5 80.47
TOP 4 0 80.47 C5 C1 80.47
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TOP 23 20 84.76 C24 C21 84.76
BOT 20 24 77.83 C21 C25 77.83
TOP 24 20 77.83 C25 C21 77.83
BOT 20 25 83.33 C21 C26 83.33
TOP 25 20 83.33 C26 C21 83.33
BOT 20 26 82.71 C21 C27 82.71
TOP 26 20 82.71 C27 C21 82.71
BOT 20 27 79.44 C21 C28 79.44
TOP 27 20 79.44 C28 C21 79.44
BOT 20 28 86.11 C21 C29 86.11
TOP 28 20 86.11 C29 C21 86.11
BOT 20 29 80.56 C21 C30 80.56
TOP 29 20 80.56 C30 C21 80.56
BOT 20 30 83.33 C21 C31 83.33
TOP 30 20 83.33 C31 C21 83.33
BOT 20 31 75.93 C21 C32 75.93
TOP 31 20 75.93 C32 C21 75.93
BOT 20 32 81.31 C21 C33 81.31
TOP 32 20 81.31 C33 C21 81.31
BOT 20 33 82.21 C21 C34 82.21
TOP 33 20 82.21 C34 C21 82.21
BOT 20 34 80.84 C21 C35 80.84
TOP 34 20 80.84 C35 C21 80.84
BOT 20 35 80.37 C21 C36 80.37
TOP 35 20 80.37 C36 C21 80.37
BOT 20 36 81.94 C21 C37 81.94
TOP 36 20 81.94 C37 C21 81.94
BOT 20 37 78.97 C21 C38 78.97
TOP 37 20 78.97 C38 C21 78.97
BOT 20 38 81.31 C21 C39 81.31
TOP 38 20 81.31 C39 C21 81.31
BOT 20 39 61.57 C21 C40 61.57
TOP 39 20 61.57 C40 C21 61.57
BOT 20 40 79.53 C21 C41 79.53
TOP 40 20 79.53 C41 C21 79.53
BOT 20 41 83.33 C21 C42 83.33
TOP 41 20 83.33 C42 C21 83.33
BOT 20 42 80.77 C21 C43 80.77
TOP 42 20 80.77 C43 C21 80.77
BOT 20 43 82.41 C21 C44 82.41
TOP 43 20 82.41 C44 C21 82.41
BOT 20 44 81.31 C21 C45 81.31
TOP 44 20 81.31 C45 C21 81.31
BOT 20 45 85.71 C21 C46 85.71
TOP 45 20 85.71 C46 C21 85.71
BOT 20 46 86.18 C21 C47 86. 