
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
13:08 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/chrZ_6671.phylip" (19 taxa, 937 characters)

Minimum AIC  model: HKYG
Minimum AICc model: HKYG
Minimum BIC  model: HKYG


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
HKYG	40	-3765.9268	7615.5144	0.6408	0.6408
HKYIG	41	-3765.5922	7617.0324	0.3000	0.9408
GTRG	44	-3764.3062	7621.0518	0.0402	0.9810
GTRIG	45	-3763.9539	7622.5543	0.0190	1.0000
HKYI	40	-3776.7264	7637.1136	0.0000	1.0000
GTRI	44	-3774.3519	7641.1433	0.0000	1.0000
SYMG	41	-3800.3223	7686.4927	0.0000	1.0000
K2PG	37	-3804.9816	7687.0911	0.0000	1.0000
SYMIG	42	-3799.9111	7687.8625	0.0000	1.0000
K2PIG	38	-3804.5977	7688.4960	0.0000	1.0000
K2PI	37	-3815.3365	7707.8009	0.0000	1.0000
SYMI	41	-3811.1764	7708.2009	0.0000	1.0000
HKY	39	-3836.7434	7754.9652	0.0000	1.0000
GTR	43	-3835.0009	7760.2392	0.0000	1.0000
F81G	39	-3850.2098	7781.8979	0.0000	1.0000
F81IG	40	-3849.9782	7783.6170	0.0000	1.0000
F81I	39	-3858.7307	7798.9397	0.0000	1.0000
K2P	36	-3877.5747	7830.1094	0.0000	1.0000
SYM	40	-3874.5038	7832.6682	0.0000	1.0000
JC69G	36	-3885.5859	7846.1319	0.0000	1.0000
JC69IG	37	-3885.3440	7847.8158	0.0000	1.0000
JC69I	36	-3894.2893	7863.5386	0.0000	1.0000
F81	38	-3916.4330	7912.1666	0.0000	1.0000
JC69	35	-3953.1072	7979.0114	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-3765.9268	7611.8537	0.6042	0.6042
HKYIG	41	-3765.5922	7613.1843	0.3106	0.9148
GTRG	44	-3764.3062	7616.6124	0.0560	0.9707
GTRIG	45	-3763.9539	7617.9078	0.0293	1.0000
HKYI	40	-3776.7264	7633.4529	0.0000	1.0000
GTRI	44	-3774.3519	7636.7039	0.0000	1.0000
SYMG	41	-3800.3223	7682.6446	0.0000	1.0000
SYMIG	42	-3799.9111	7683.8222	0.0000	1.0000
K2PG	37	-3804.9816	7683.9632	0.0000	1.0000
K2PIG	38	-3804.5977	7685.1953	0.0000	1.0000
SYMI	41	-3811.1764	7704.3528	0.0000	1.0000
K2PI	37	-3815.3365	7704.6730	0.0000	1.0000
HKY	39	-3836.7434	7751.4869	0.0000	1.0000
GTR	43	-3835.0009	7756.0018	0.0000	1.0000
F81G	39	-3850.2098	7778.4197	0.0000	1.0000
F81IG	40	-3849.9782	7779.9563	0.0000	1.0000
F81I	39	-3858.7307	7795.4615	0.0000	1.0000
K2P	36	-3877.5747	7827.1494	0.0000	1.0000
SYM	40	-3874.5038	7829.0075	0.0000	1.0000
JC69G	36	-3885.5859	7843.1719	0.0000	1.0000
JC69IG	37	-3885.3440	7844.6879	0.0000	1.0000
JC69I	36	-3894.2893	7860.5786	0.0000	1.0000
F81	38	-3916.4330	7908.8659	0.0000	1.0000
JC69	35	-3953.1072	7976.2145	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-3765.9268	7805.5610	0.9563	0.9563
HKYIG	41	-3765.5922	7811.7344	0.0437	1.0000
HKYI	40	-3776.7264	7827.1602	0.0000	1.0000
GTRG	44	-3764.3062	7829.6904	0.0000	1.0000
GTRIG	45	-3763.9539	7835.8286	0.0000	1.0000
GTRI	44	-3774.3519	7849.7819	0.0000	1.0000
K2PG	37	-3804.9816	7863.1425	0.0000	1.0000
K2PIG	38	-3804.5977	7869.2173	0.0000	1.0000
SYMG	41	-3800.3223	7881.1946	0.0000	1.0000
K2PI	37	-3815.3365	7883.8522	0.0000	1.0000
SYMIG	42	-3799.9111	7887.2149	0.0000	1.0000
SYMI	41	-3811.1764	7902.9029	0.0000	1.0000
HKY	39	-3836.7434	7940.3515	0.0000	1.0000
GTR	43	-3835.0009	7964.2372	0.0000	1.0000
F81G	39	-3850.2098	7967.2843	0.0000	1.0000
F81IG	40	-3849.9782	7973.6637	0.0000	1.0000
F81I	39	-3858.7307	7984.3261	0.0000	1.0000
K2P	36	-3877.5747	8001.4860	0.0000	1.0000
JC69G	36	-3885.5859	8017.5085	0.0000	1.0000
SYM	40	-3874.5038	8022.7149	0.0000	1.0000
JC69IG	37	-3885.3440	8023.8672	0.0000	1.0000
JC69I	36	-3894.2893	8034.9152	0.0000	1.0000
F81	38	-3916.4330	8092.8879	0.0000	1.0000
JC69	35	-3953.1072	8145.7084	0.0000	1.0000



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

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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_6671.phylip = 1 - 937;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_6671.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 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);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_6671.phylip = 1 - 937;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_6671.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 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);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_6671.phylip = 1 - 937;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_6671.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 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);
END;


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End of Output

