
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:19 02/24/2011

Input data from file "/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_6135.phylip" (19 taxa, 1123 characters)

Minimum AIC  model: HKYIG
Minimum AICc model: HKYIG
Minimum BIC  model: K2PIG


Note: number of parameters compared to sample size
is low (Nchar/Nparams < 40). Consider the use of AICc.


(Output sorted by AICc. w: Akaike weight, cw: cumulative w.)

Model	df	lnL		AICc		wAICc	cwAICc
HKYIG	41	-2813.5305	5712.2470	0.6042	0.6042
GTRIG	45	-2809.6287	5713.1015	0.3941	0.9984
GTRI	44	-2817.3661	5726.4058	0.0005	0.9989
HKYI	40	-2821.7461	5726.5236	0.0005	0.9994
K2PIG	38	-2823.9718	5726.6778	0.0004	0.9998
SYMIG	42	-2820.6436	5728.6317	0.0002	1.0000
K2PI	37	-2832.0345	5740.6607	0.0000	1.0000
SYMI	41	-2828.5001	5742.1861	0.0000	1.0000
GTRG	44	-2827.5810	5746.8355	0.0000	1.0000
HKYG	40	-2832.4236	5747.8787	0.0000	1.0000
SYMG	41	-2838.1996	5761.5851	0.0000	1.0000
K2PG	37	-2843.5814	5763.7546	0.0000	1.0000
F81IG	40	-2880.8681	5844.7676	0.0000	1.0000
F81I	39	-2887.6362	5856.1532	0.0000	1.0000
JC69IG	37	-2891.2679	5859.1275	0.0000	1.0000
JC69I	36	-2898.0433	5870.5396	0.0000	1.0000
F81G	39	-2899.0990	5879.0789	0.0000	1.0000
JC69G	36	-2907.9338	5890.3206	0.0000	1.0000
GTR	43	-2922.1694	5933.8458	0.0000	1.0000
HKY	39	-2930.4683	5941.8176	0.0000	1.0000
SYM	40	-2933.3130	5949.6573	0.0000	1.0000
K2P	36	-2938.9805	5952.4140	0.0000	1.0000
F81	38	-2992.3214	6063.3770	0.0000	1.0000
JC69	35	-3002.6276	6077.5735	0.0000	1.0000



(Output sorted by AIC. w: Akaike weight, cw: cumulative w.)

Model	df	lnL		AIC		wAIC	cwAIC
HKYIG	41	-2813.5305	5709.0610	0.5238	0.5238
GTRIG	45	-2809.6287	5709.2575	0.4748	0.9986
GTRI	44	-2817.3661	5722.7323	0.0006	0.9992
HKYI	40	-2821.7461	5723.4922	0.0004	0.9995
K2PIG	38	-2823.9718	5723.9435	0.0003	0.9998
SYMIG	42	-2820.6436	5725.2873	0.0002	1.0000
K2PI	37	-2832.0345	5738.0690	0.0000	1.0000
SYMI	41	-2828.5001	5739.0002	0.0000	1.0000
GTRG	44	-2827.5810	5743.1621	0.0000	1.0000
HKYG	40	-2832.4236	5744.8473	0.0000	1.0000
SYMG	41	-2838.1996	5758.3991	0.0000	1.0000
K2PG	37	-2843.5814	5761.1629	0.0000	1.0000
F81IG	40	-2880.8681	5841.7362	0.0000	1.0000
F81I	39	-2887.6362	5853.2723	0.0000	1.0000
JC69IG	37	-2891.2679	5856.5358	0.0000	1.0000
JC69I	36	-2898.0433	5868.0866	0.0000	1.0000
F81G	39	-2899.0990	5876.1980	0.0000	1.0000
JC69G	36	-2907.9338	5887.8676	0.0000	1.0000
GTR	43	-2922.1694	5930.3389	0.0000	1.0000
HKY	39	-2930.4683	5938.9367	0.0000	1.0000
SYM	40	-2933.3130	5946.6259	0.0000	1.0000
K2P	36	-2938.9805	5949.9609	0.0000	1.0000
F81	38	-2992.3214	6060.6427	0.0000	1.0000
JC69	35	-3002.6276	6075.2552	0.0000	1.0000



(Output sorted by BIC. w: Akaike weight, cw: cumulative w.)

Model	df	lnL		BIC		wBIC	cwBIC
K2PIG	38	-2823.9718	5914.8464	0.5185	0.5185
HKYIG	41	-2813.5305	5915.0351	0.4718	0.9902
K2PI	37	-2832.0345	5923.9481	0.0055	0.9957
HKYI	40	-2821.7461	5924.4425	0.0043	1.0000
GTRIG	45	-2809.6287	5935.3266	0.0000	1.0000
SYMIG	42	-2820.6436	5936.2852	0.0000	1.0000
GTRI	44	-2817.3661	5943.7777	0.0000	1.0000
SYMI	41	-2828.5001	5944.9743	0.0000	1.0000
HKYG	40	-2832.4236	5945.7976	0.0000	1.0000
K2PG	37	-2843.5814	5947.0419	0.0000	1.0000
GTRG	44	-2827.5810	5964.2075	0.0000	1.0000
SYMG	41	-2838.1996	5964.3733	0.0000	1.0000
JC69IG	37	-2891.2679	6042.4149	0.0000	1.0000
F81IG	40	-2880.8681	6042.6866	0.0000	1.0000
JC69I	36	-2898.0433	6048.9419	0.0000	1.0000
F81I	39	-2887.6362	6049.1989	0.0000	1.0000
JC69G	36	-2907.9338	6068.7229	0.0000	1.0000
F81G	39	-2899.0990	6072.1246	0.0000	1.0000
K2P	36	-2938.9805	6130.8163	0.0000	1.0000
HKY	39	-2930.4683	6134.8633	0.0000	1.0000
GTR	43	-2922.1694	6146.3605	0.0000	1.0000
SYM	40	-2933.3130	6147.5763	0.0000	1.0000
JC69	35	-3002.6276	6251.0868	0.0000	1.0000
F81	38	-2992.3214	6251.5456	0.0000	1.0000



To specify default values for best AIC, AICc, or BIC models in MrBayes:

[Mrbayes block for the best AIC model (HKYIG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_6135.phylip = 1 - 1123;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_6135.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=invgamma;
 Prset applyto=(1) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) tratiopr=Beta(1.0,1.0) shapepr=Uniform(0.1,50.0) pinvarpr=Uniform(0.0,1.0);
END;


[Mrbayes block for the best AICc model (HKYIG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_6135.phylip = 1 - 1123;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_6135.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=invgamma;
 Prset applyto=(1) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) tratiopr=Beta(1.0,1.0) shapepr=Uniform(0.1,50.0) pinvarpr=Uniform(0.0,1.0);
END;


[Mrbayes block for the best BIC model (K2PIG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_6135.phylip = 1 - 1123;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_6135.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=invgamma;
 Prset applyto=(1) statefreqpr=Fixed(Equal) tratiopr=Beta(1.0,1.0) shapepr=Uniform(0.1,50.0) pinvarpr=Uniform(0.0,1.0);
END;


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End of Output

