--- EXPERIMENT NOTES ### Obtaining branch lengths and nucleotide substitution biases under the nucleotide GTR model * Log(L) = -10384.78, AIC-c = 20935.83 (83 estimated parameters) * Tree length (expected substitutions/site) for partition 1 : 2.100 ### Computing the phylogenetic likelihood function on the grid * Determining appropriate tree scaling based on the best score from a 20 x 20 rate grid * Best scaling achieved for * synonymous rate = 2.815 * non-synonymous rate = 0.500 * Computing conditional site likelihoods on a 20 x 20 rate grid ### Running an iterative zeroth order variational Bayes procedure to estimate the posterior mean of rate weights * Using the following settings * Dirichlet alpha : 0.5 ### Tabulating site-level results | Codon | Partition | alpha | beta |Posterior prob for positive selection| |:--------------:|:--------------:|:--------------:|:--------------:|:-----------------------------------:| | 26 | 1 | 0.361 | 6.902 | Pos. posterior = 0.9998 | | 27 | 1 | 0.733 | 2.625 | Pos. posterior = 0.9267 | | 57 | 1 | 0.813 | 3.112 | Pos. posterior = 0.9843 | | 59 | 1 | 0.558 | 7.112 | Pos. posterior = 0.9983 | | 108 | 1 | 0.624 | 2.470 | Pos. posterior = 0.9635 | | 113 | 1 | 0.856 | 2.516 | Pos. posterior = 0.9184 | | 152 | 1 | 0.437 | 2.559 | Pos. posterior = 0.9862 | | 220 | 1 | 0.680 | 2.112 | Pos. posterior = 0.9136 | | 307 | 1 | 0.762 | 2.899 | Pos. posterior = 0.9833 | ---- ## FUBAR inferred 9 sites subject to diversifying positive selection at posterior probability >= 0.9 Of these, 0.33 are expected to be false positives (95% confidence interval of 0-2 ) --- EXPERIMENT PROPERTIES #Wed Jul 03 21:31:22 GMT 2019 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=/opt/mrbayes_3.2.2/src tcoffee.dir= tcoffee.minScore=3 input.fasta= input.names= mrbayes.params= codeml.params= --- PSRF SUMMARY Estimated marginal likelihoods for runs sampled in files "/data/results/aves_gene2/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/data/results/aves_gene2/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 /data/results/aves_gene2/batch/allfiles/mrbayes/input.fasta.fasta.mrb.lstat) Run Arithmetic mean Harmonic mean -------------------------------------- 1 -9378.32 -9420.47 2 -9378.95 -9426.51 -------------------------------------- TOTAL -9378.59 -9425.82 -------------------------------------- Model parameter summaries over the runs sampled in files "/data/results/aves_gene2/batch/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/data/results/aves_gene2/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 "/data/results/aves_gene2/batch/allfiles/mrbayes/input.fasta.fasta.mrb.pstat". 95% HPD Interval -------------------- Parameter Mean Variance Lower Upper Median min ESS* avg ESS PSRF+ ------------------------------------------------------------------------------------------------------ TL{all} 4.342772 0.059347 3.884258 4.821215 4.334906 1116.27 1203.87 1.000 r(A<->C){all} 0.087400 0.000096 0.067818 0.105748 0.086934 703.43 764.45 1.000 r(A<->G){all} 0.294398 0.000447 0.255065 0.336381 0.293725 372.63 378.47 1.001 r(A<->T){all} 0.054862 0.000054 0.041109 0.069441 0.054418 576.77 623.01 1.001 r(C<->G){all} 0.126789 0.000125 0.104369 0.148212 0.126783 597.26 735.61 1.001 r(C<->T){all} 0.390366 0.000564 0.343100 0.434567 0.390455 374.12 419.38 1.001 r(G<->T){all} 0.046184 0.000042 0.033478 0.058814 0.046153 838.76 943.14 1.000 pi(A){all} 0.248265 0.000140 0.223990 0.270860 0.248338 621.69 655.76 1.000 pi(C){all} 0.215441 0.000127 0.194238 0.238030 0.215529 476.01 550.34 1.002 pi(G){all} 0.306492 0.000167 0.282177 0.332303 0.306500 387.00 511.85 1.000 pi(T){all} 0.229802 0.000153 0.205392 0.252891 0.229722 501.05 533.04 1.000 alpha{1,2} 0.246722 0.000361 0.210856 0.283850 0.245900 1247.12 1297.16 1.000 alpha{3} 1.250751 0.025833 0.947296 1.571949 1.237926 1244.46 1308.40 1.003 pinvar{all} 0.052702 0.000821 0.000065 0.102440 0.050291 1094.45 1182.79 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 -8239.045331 Model 2: PositiveSelection -8230.564022 Model 0: one-ratio -8496.784809 Model 3: discrete -8191.362382 Model 7: beta -8208.886747 Model 8: beta&w>1 -8189.27967 Model 0 vs 1 515.4789560000027 Model 2 vs 1 16.962617999997747 Additional information for M1 vs M2: Naive Empirical Bayes (NEB) analysis Positively selected sites (*: P>95%; **: P>99%) (amino acids refer to 1st sequence: Anas platyrhynchos (mallard) Anatidae XP 005021301.1) Pr(w>1) post mean +- SE for w 5 G 0.998** 2.468 27 G 0.546 1.803 29 G 0.991** 2.458 33 P 0.638 1.939 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: Anas platyrhynchos (mallard) Anatidae XP 005021301.1) Pr(w>1) post mean +- SE for w 5 G 0.998** 2.493 +- 0.285 26 P 0.529 1.775 +- 0.751 27 G 0.713 2.056 +- 0.697 29 G 0.994** 2.488 +- 0.297 33 P 0.782 2.161 +- 0.648 Model 8 vs 7 39.214154000001145 Additional information for M7 vs M8: Naive Empirical Bayes (NEB) analysis Positively selected sites (*: P>95%; **: P>99%) (amino acids refer to 1st sequence: Anas platyrhynchos (mallard) Anatidae XP 005021301.1) Pr(w>1) post mean +- SE for w 5 G 1.000** 1.507 18 G 0.932 1.441 26 P 0.994** 1.501 27 G 0.998** 1.505 28 S 0.865 1.375 29 G 1.000** 1.507 33 P 0.998** 1.506 66 Q 0.859 1.370 71 A 0.880 1.390 72 H 0.849 1.360 78 P 0.561 1.069 110 N 0.992** 1.500 168 V 0.600 1.118 170 K 0.598 1.115 256 I 0.986* 1.494 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: Anas platyrhynchos (mallard) Anatidae XP 005021301.1) Pr(w>1) post mean +- SE for w 5 G 0.999** 1.510 +- 0.107 18 G 0.740 1.314 +- 0.324 26 P 0.944 1.471 +- 0.186 27 G 0.968* 1.490 +- 0.155 28 S 0.664 1.250 +- 0.365 29 G 0.998** 1.510 +- 0.108 33 P 0.973* 1.493 +- 0.148 66 Q 0.692 1.266 +- 0.369 71 A 0.665 1.254 +- 0.358 72 H 0.642 1.232 +- 0.372 110 N 0.928 1.459 +- 0.197 256 I 0.885 1.426 +- 0.229
>C1 MDPPGGDWTQAPRWDEKEGALLCVDIPGRRACRWSPGSGQLQAVPLDAPV SSVALRKSGGYVVTLGTRFAALNWKEQQVTTIAHVDKDKPNNRFNDGKVD PAGRYFAGTMAEEIRPAVLERNQGSLYTLCPDLSVVKHFDRVDISNGLDW SLDHKTFFYIDSLSYSVDAFDYDIQTGKIDNRRSVYKLEKEESIPDGMCI DTEGKLWVACYDGGRVIRLDPETGKRIQTVKLPVDKTTSCCFGGKDYSEM YVTSARDGMDKEWLSRQPQAGGIFKITGLGVKGIPPYAFAGooooooooo oooooooooooooooooo >C2 MSSVKIECIANEGSRIGESPVWDEKESALLFVDITGRKVCRWSSVTKQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEKLVTTIAHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDFAVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSARDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C3 MASVKIECVANEGYRIGESPVWDEKESALLYVDITGRKVCRWSSLSQRVQ AVAVDAPVSSVALRKSGDYVITLGTRFAALKWKEELVTTLTHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGALYTLVVKHFDQVDISNG LDWSLDHKTFYYIDSLSYSVDAFDYDVQTGKIGNRRNVYKLEKEENIPDG MCIDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCFGGKDY SEMYVTSASDGMDEEWLSRQPQAGGIFKITGLGVKGVPPYPFAGoooooo oooooooooooooooooo >C4 MSSIKIECVAKEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVTKQVQ TISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGEDYSEMYVTSASDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C5 MSSVKIECVANEGCRIGESPVWDEKESALLYVDITGRKVCRWSPATTRVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITQVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIQPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C6 MSSIKIECVANEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVSKQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPHPFAGo oooooooooooooooooo >C7 MSSVKIECVASEGCRIGESPVWDEKESALVFVDITGRKVCRWSPVTKQVQ AIAVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITQADKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDHSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSMYKLEKEE SIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKDWLSRQPQAGGIFKITGLGVKGVAPYPFAGo oooooooooooooooooo >C8 MSSVKIECVTSEGFRLGESPVWDEKEGALLCVDITGRKVCRWSPATKQVQ TVPVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLCSDLSVLKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGLFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C9 MSSIKIECVTKDGCRIGESPVWDEKESALLFVDITGRKVCRWSSVTKQVQ AIPVDAPVSSIAHRKSGDYVITLGTRFAGLKWKEQQVTIITEIDKDKPNN RFNDGKVDPAGRYFAGTMAEETRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIDNRRSVYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKSLKRVDCNPLDKTTSCC FGGKDYSEMYVTSASDGMDEEWLSRQPQAGRIFKITGLGVKGIPPYPFAG oooooooooooooooooo >C10 MSSVKIECIASEGYGIGESPVWDAKESALLYVDITGRKVCRWSSVTKQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALNWKEQLVTTIAHVDKDKSNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFTDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVLRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASVGMDKEWLSRQPQAGGVFKITGLGVKGVPPHPFAGo oooooooooooooooooo >C11 MSSVKIECVASEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVTKQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDEDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSMYKLEKEE SIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C12 MSSVKVECVAREGSRIGESPVWDEKENALLFVDIPAGKVCRWSAHTQRVH AVPVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTIAQIDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFPDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGANCNRRSIYRLE KEESIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTS CCFGGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGIPPYPF AGoooooooooooooooo >C13 MSSVKIECIASEGYRIGESPVWDERESALLCVDITGRKVCRWSSLTKQVQ AIAVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYELQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGRRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKDWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C14 MSSVKIECIASEGYGIGESPVWDEKEGALLCVDIAGRKVCRWSSLTGQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTIAHVEKDKPNN RFNDGKVDPAGRYFAGTMAEEVRPAVLERHQGSLYTLFSDFSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDIQTGKIANRRSVYRPEKEE SIPDGMCVDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASYGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C15 MSSIKIECVASEGYRIGESPVWDEKERALLCVDITGKKVCRWSSLTQQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQQVTTITQIDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDHSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGQDYSEMYVTSARDGMDKEWLARQPQAGGIFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C16 MSSVRIECVAKEGCRIAESPVWDEKEGALLYVDITGRKVCRWSPVTRQVQ AIPVDAPVSSVALRKSGDYVITLGTRFAALKWKEELVTTITQVDKDKANT RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFPDLSVVRHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMSIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGNDYSEMYVTTATDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C17 MSSVKIECIGSDRYRLGESPVWDEKQNSLLYVDITGRKVCRWDAASGQVQ AVSVDAPVSSVALRKSGDYVITLGTRFAALKWKEQSVTTIAQVDRDKANN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLCPDHSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSFSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRIQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDREWLSRQPQAGGVFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C18 MSSIKIECIGSEGNRLGESPVWDEKESALLYVDITGRKVCRWSSVTNQVQ AISVDAPVSSVALRKSGDYIITLGTRFAALKWKEQQVTTIEHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSNLSVVKHFNQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEGLSRQPQAGRVFKITGLGVKGVPPYPFVGo oooooooooooooooooo >C19 MLMLALCLTLLEVFEALQQGEQKRARHAEGPGFLNKQGNAAGAVEKDARR WKLGPRPSKRLNHSKAARKNQPFDAPVSSVALRKSGDYVITLGTRFAALK WEEQLVTTITHVDKDKPNNRFNDGKVDPAGRYFAGTMAEEIRPAVLERRQ GSLYTLFSDLSVVKHFNQVDISNGLDWSLDHKTFFYIDSLSYSVDAFDYD LQTGKIGNRRSIYKLEKEESIPDGMCIDTEGKLWVACYDGGRVIRLDPET GKRLQTVKLPVDKTTSCCFGGKDYSEMYVTSARDGMDKEWLSRQPQAGGI FKITGLGVKGVPPYPFAG >C20 MSSIKIECVASEGYGIGESPVWDEKEDALLCVDIAGGLLWNPLFHFTLFL DAPVSSVALRKSGDYVITLGTRFAALKWEEQLVTTITHVDKDKPNNRFND GKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLFSDLSVVKHFNQVDISN GLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEESIPD GMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCFGGKD YSEMYVTSARDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGooooo oooooooooooooooooo >C21 MSSVRIECVAKEGCRIGESPVWDEKEGALLYVDITGRKVCRWSPVTGQTQ AIPVDAPVSSVALRQSGDYVITLGTRFAALKWKEQLVTSITQVDKDKVNT RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFPDLSVVKHFDQV DISNGLDWSLDHRTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C22 MSSIRIECVAKEGYRIGESPVWDEKESALLGRKVCRWSSVTQQVQAISVD APVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKDKPNNRFNDG KVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQVDISNG LDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYRLEKEESIPDG MCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCFGGKDY SEMYVTSASDGMDKDWLSRQPQAGGVFKITGLGVKGVPPYPFAGoooooo oooooooooooooooooo >C23 MSSVKIECVGSDRYRLGESPVWDEKENSLLCVDITGRKVCRWDAASGQVQ AVSVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTIAQVDRDKANN RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLCPDHSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSVYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRIQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDREWLSRQPQAGGVFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C24 MSSIKIECIASEGYRIGESPVWDEKESALLCVDITGRKVCRWNSVSNQVQ TISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDVQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQSVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C25 MSSVKIECVANEGCRIGESPVWDEKESALLFVDITGRKVCRWSPAAKQAQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITQVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIQPAVLERHQGSLYTLFPDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C26 MSSVKIECVANEGCRIGESPVWDEKESALLFVDITGRKVCRWSPAAKQAQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITQVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIQPAVLERHQGSLYTLFPDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDIQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C27 MSSVGIECVAREGCRIGESPVWDEKEGALLFVDITGRKVCRWSPVTRQAQ AIAVDAPVSSVALRKSGDYVITLGTRFAALKWKEGLVTTITQVDKDKANT RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLLPDISVVKHFDQV DISNGLDWSLDHRTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMFVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVAPYPFAGo oooooooooooooooooo >C28 MSSVRIECVANEGYRIGESPVWDEKEDALLYVDISGRKVCRWSPVTRQAQ AIPVDAPVSSVALRKSGDYVITLGTKFAALKWKEEQVTTITQVDKDKPNN RFNDGKVDPAGRYFAGTMAEETRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE NIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C29 MSSVKIECIGSDRYRLGESPVWDEKENSLLYVDITGRKVCRWDAASGQVQ AVSVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTIAQVDRDKAKN RFNDGKVDPAGRYFAGTMAEEIRPAVLEPRQGSLYTLCPDHSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE NIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRIQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDREWLSKQPQAGGVFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C30 MSAVKIECVASEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVTKQVQ AISVDAPVSSVALRKSGGYVITLGTRFAALKWKEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYSLLSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPFPFAGo oooooooooooooooooo >C31 MSSVKVECVTSEGCRIGESPVWDEKESALLYVDISGRKVCRWSSLTQQVQ DVSVDAPVSSVALRRSGDYVITLGTRFAALKWKEQLITTIAHVDKDKANN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKQFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMFVTSASDGMDKEWLSRQPQAGRIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C32 MSSIKIECIADESYRIGESPVWDEKEGVLLCVDITGRKVCRWSPVTKQVQ AISVDAPVSSVALRKSGDYVVTLGTRFAALKWKEQLVTTIAHVDKDKTNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLNSDLSVVKHFDKV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDIQTGKIGNRRSIYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C33 MSSVKIECVASEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVTKQIQ AISVDAPVSSVALRKSGGYVITLGTRFAALKWNEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYSLHSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIDNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C34 MSSVQIECVAREGCRIGESPVWDEKESALLCVDITGRKVCRWSWVTKQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTIAQVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSVYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C35 MSSVKIECVGSERYRLGESPVWDEKEGSLLCVDITGRKVCRWDSASGQVQ AVSVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTIAQVDRDKASN RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLCPDHSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYNLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYNGGRVIRLDPETGKRIQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDREWLSRQPQAGGVFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C36 MASVKIECVASKGYGIGESPVWDEKESALLCVDITGRKVCRWSAVTKQVE AIAVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTIAHVDKDKPNN RFNDGKVDPAGRYFAGMLQAVLCDCSAWGREGSGFYLFPDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDIQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSARDGMDEEWLSRQPQAGGLFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C37 MSSVRIECVAKEGYRIGESPVWDEKEGALLCVDITGRKVCRWSPLTGETR AIPVDAPVSSVALRKSGDYVITLGTRFAALKWKEELVTTITQVDKDKANT RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLLPDLSVVKHFDQV DISNGLDWSLDHRIFFYIDSLSYSVDAFDYDLQTGKIGNRRNIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSWQPQAGGIFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C38 MSSVKIECVANEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVTQRVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKNKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLARQPQAGGVFKITGLGVKGVPPNPFAGo oooooooooooooooooo >C39 MSSIKIECVANEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVTGQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKGWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C40 MSSIKIECITKENNEIGESPVWDEKESSLLYVDITGKKVCRWSSVTKQVQ AISVGNLVGSVALRKSGDYVITLGTTFAALKWKEQVVTTITQVDNGKPNT RFNDGKVDPAGRYFAGTMPDEVHPHMMERKQGALYTLFSDHSVVKHFDQV DVSNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKISNRRSVYKLEKEE NIPDGMCIDTEGKLWVACYNGGRVLRLDPETGKRLQTLKLPVDKTTSCCF GGKDYSEMYVTSASVEMDKEYLARQPQAGRIFKITGLGVKGVPPNPFAGo oooooooooooooooooo >C41 MSSVRIECVAEEGYGIGESPVWDEKEGALLCVDITGRKVCRWSPLTGETQ AMPVDAPVSSVALRKSGDYVITLGTRFAALKWKEELVTTITQVDKDKANT RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLLPDLSVVKHFDQV DISNGLDWSLDHRIFFYVDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C42 MSSVKIECVAKEGYRIGESPVWDEKESALLCVDITGRKVCRWSSVTKQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKEQLVTTLTHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFSDLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYRLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGEDYSEMYVTSASDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C43 MASVSIECVAREGCRIGESPVWDQREGALLFVDITGRKVCRWSPLTRQTQ AIAVDAPVSSVALRKSEDYVITLGTRFAALKWKEELVTTITQVDKDKANT RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLFPDLSVVKHFDQV DISNGLDWSLDHRTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMFVTSASDGMDKEWLSRQPEAGGIFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C44 MSSVKIECVASENYKIGESPVWDEKENSLLYVDITGKKVCKWNSLTKQVQ AISVDAPVSSVALRKSGDYVITLGTRFAALKWKDQLVTTITHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGALYTLLADLSVVKHFDQV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLHTGKIGNRRSIYKMEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRIQTVKLPVDKTTSCCF GGKDYSEMYVTSASEGMDKDWLSRQPQAGGVFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C45 MSSVRIECVAKEGCRIGESPVWDEKQGALLYVDITGRKVCRWSPVTRQTQ AIPVDAPVSSVALRQSGDYVITLGTRFAALKWKEELVTTITQVDKDKANN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLFPDLSVVKHFDQV DISNGLDWSLDHRTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDAETGKRLQTVKLPVDKTTSCCF GGNDYSEMYVTSASDGMDKEWLSRQPQAGGVFKITGLGVKGVPPYPFAGo oooooooooooooooooo >C46 MSSVSIECVAREGCRIGESPVWDEKEGALLFVDITGRKVCRWSPVTRQAQ AIAVDAPVSSVALRKSGDYVITLGTRFAALKWKEGLVTTITQVDKDKANT RFNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLLPDLSVVKHFDQV DISNGLDWSLDHRTFFYIDSLSYSVDAFDYDLQTGKIGNRRSIYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMFVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVAPYPFAGo oooooooooooooooooo >C47 MASIKIECVAKENCKIGESPVWDAKENSLLYVDITGRKVCKWSSLTQQVQ AIPVDAPVSSLALRKSGDYVITLGTRFASLKWKDQVVTTIAHVDKDKPNN RFNDGKVDPAGRYFAGTMAEEIRPAVLERHQGSLYTLHADHSVVKHFDRV DISNGLDWSLDHKTFFYIDSLSYSVDAFDYDLQTGKIGNRRSMYKLEKEE SIPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCF GGKDYSEMYVTSASEGMDKDWLSRQPQAGGVFKITGLGVKGIPPYPFAGo oooooooooooooooooo >C48 MSSVSIECVAEGCRIGESPVWDDREGALLYVDITGRKVCRWSPVTRQAQA IALDAPVSSVALRQSGGYVITLGTRFAALKWKEELVTTIAQVDKDKANTR FNDGKVDPAGRYFAGTMAEEIRPAVLERRQGSLYTLLPDLSVVKHFGQVD ISNGLDWSLDHRTFFYIDSLSYSVDAFDYDLQTGKIGNRRNIYKLEKEES IPDGMCIDTEGKLWVACYDGGRVIRLDPETGKRLQTVKLPVDKTTSCCFG GKDYSEMFVTSASDGMDKEWLSRQPQAGGIFKITGLGVKGVPPYPFAGoo oooooooooooooooooo CLUSTAL FORMAT for T-COFFEE Version_10.00.r1613 [http://www.tcoffee.org] [MODE: ], CPU=0.00 sec, SCORE=100, Nseq=48, Len=352 C1 --------MD------------PPGGDWTQAPRWDEKEGALLCVDIPGRR C2 MSSVKIECIA------------NEGSRIGESPVWDEKESALLFVDITGRK C3 MASVKIECVA------------NEGYRIGESPVWDEKESALLYVDITGRK C4 MSSIKIECVA------------KEGYRIGESPVWDEKESALLCVDITGRK C5 MSSVKIECVA------------NEGCRIGESPVWDEKESALLYVDITGRK C6 MSSIKIECVA------------NEGYRIGESPVWDEKESALLCVDITGRK C7 MSSVKIECVA------------SEGCRIGESPVWDEKESALVFVDITGRK C8 MSSVKIECVT------------SEGFRLGESPVWDEKEGALLCVDITGRK C9 MSSIKIECVT------------KDGCRIGESPVWDEKESALLFVDITGRK C10 MSSVKIECIA------------SEGYGIGESPVWDAKESALLYVDITGRK C11 MSSVKIECVA------------SEGYRIGESPVWDEKESALLCVDITGRK C12 MSSVKVECVA------------REGSRIGESPVWDEKENALLFVDIPAGK C13