
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:49 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/chr2_23099.phylip" (19 taxa, 745 characters)

Minimum AIC  model: GTRG
Minimum AICc model: GTRG
Minimum BIC  model: GTRG


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
GTRG	44	-3487.8760	7069.4092	0.7552	0.7552
GTRIG	45	-3487.8709	7071.6646	0.2445	0.9997
GTRI	44	-3496.7516	7087.1603	0.0001	0.9998
SYMG	41	-3500.1435	7087.1861	0.0001	0.9999
SYMIG	42	-3500.0546	7089.2545	0.0000	1.0000
HKYG	40	-3502.8881	7090.4352	0.0000	1.0000
HKYIG	41	-3502.8278	7092.5545	0.0000	1.0000
SYMI	41	-3507.2256	7101.3501	0.0000	1.0000
HKYI	40	-3508.8818	7102.4226	0.0000	1.0000
K2PG	37	-3513.2054	7104.3882	0.0000	1.0000
K2PIG	38	-3513.0651	7106.3284	0.0000	1.0000
K2PI	37	-3518.4763	7114.9299	0.0000	1.0000
GTR	43	-3559.3084	7210.0147	0.0000	1.0000
F81G	39	-3569.7055	7221.8366	0.0000	1.0000
SYM	40	-3568.8673	7222.3937	0.0000	1.0000
F81IG	40	-3569.2928	7223.2448	0.0000	1.0000
HKY	39	-3571.0670	7224.5596	0.0000	1.0000
F81I	39	-3573.3277	7229.0809	0.0000	1.0000
JC69G	36	-3578.2634	7232.2896	0.0000	1.0000
JC69IG	37	-3577.8376	7233.6527	0.0000	1.0000
K2P	36	-3580.7773	7237.3174	0.0000	1.0000
JC69I	36	-3581.7960	7239.3547	0.0000	1.0000
F81	38	-3632.7335	7345.6652	0.0000	1.0000
JC69	35	-3640.2786	7354.1115	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-3487.8760	7063.7520	0.7299	0.7299
GTRIG	45	-3487.8709	7065.7419	0.2699	0.9998
GTRI	44	-3496.7516	7081.5032	0.0001	0.9999
SYMG	41	-3500.1435	7082.2871	0.0001	1.0000
SYMIG	42	-3500.0546	7084.1092	0.0000	1.0000
HKYG	40	-3502.8881	7085.7761	0.0000	1.0000
HKYIG	41	-3502.8278	7087.6555	0.0000	1.0000
SYMI	41	-3507.2256	7096.4511	0.0000	1.0000
HKYI	40	-3508.8818	7097.7635	0.0000	1.0000
K2PG	37	-3513.2054	7100.4108	0.0000	1.0000
K2PIG	38	-3513.0651	7102.1301	0.0000	1.0000
K2PI	37	-3518.4763	7110.9526	0.0000	1.0000
GTR	43	-3559.3084	7204.6167	0.0000	1.0000
F81G	39	-3569.7055	7217.4110	0.0000	1.0000
SYM	40	-3568.8673	7217.7346	0.0000	1.0000
F81IG	40	-3569.2928	7218.5857	0.0000	1.0000
HKY	39	-3571.0670	7220.1341	0.0000	1.0000
F81I	39	-3573.3277	7224.6553	0.0000	1.0000
JC69G	36	-3578.2634	7228.5269	0.0000	1.0000
JC69IG	37	-3577.8376	7229.6753	0.0000	1.0000
K2P	36	-3580.7773	7233.5547	0.0000	1.0000
JC69I	36	-3581.7960	7235.5920	0.0000	1.0000
F81	38	-3632.7335	7341.4669	0.0000	1.0000
JC69	35	-3640.2786	7350.5572	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-3487.8760	7266.7409	0.6997	0.6997
HKYG	40	-3502.8881	7270.3115	0.1174	0.8170
K2PG	37	-3513.2054	7271.1061	0.0789	0.8959
SYMG	41	-3500.1435	7271.4359	0.0669	0.9628
GTRIG	45	-3487.8709	7273.3442	0.0258	0.9886
HKYIG	41	-3502.8278	7276.8043	0.0046	0.9931
K2PIG	38	-3513.0651	7277.4387	0.0033	0.9965
SYMIG	42	-3500.0546	7277.8713	0.0027	0.9991
K2PI	37	-3518.4763	7281.6478	0.0004	0.9996
HKYI	40	-3508.8818	7282.2989	0.0003	0.9998
GTRI	44	-3496.7516	7284.4921	0.0001	0.9999
SYMI	41	-3507.2256	7285.5999	0.0001	1.0000
JC69G	36	-3578.2634	7394.6087	0.0000	1.0000
F81G	39	-3569.7055	7397.3330	0.0000	1.0000
K2P	36	-3580.7773	7399.6365	0.0000	1.0000
HKY	39	-3571.0670	7400.0560	0.0000	1.0000
JC69IG	37	-3577.8376	7400.3705	0.0000	1.0000
JC69I	36	-3581.7960	7401.6738	0.0000	1.0000
SYM	40	-3568.8673	7402.2700	0.0000	1.0000
GTR	43	-3559.3084	7402.9922	0.0000	1.0000
F81IG	40	-3569.2928	7403.1210	0.0000	1.0000
F81I	39	-3573.3277	7404.5773	0.0000	1.0000
JC69	35	-3640.2786	7512.0257	0.0000	1.0000
F81	38	-3632.7335	7516.7755	0.0000	1.0000



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

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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_23099.phylip = 1 - 745;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_23099.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=6 rates=gamma;
 Prset applyto=(1) revmatpr=Dirichlet(1.0,1.0,1.0,1.0,1.0,1.0) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) shapepr=Uniform(0.1,50.0);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_23099.phylip = 1 - 745;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_23099.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=6 rates=gamma;
 Prset applyto=(1) revmatpr=Dirichlet(1.0,1.0,1.0,1.0,1.0,1.0) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) shapepr=Uniform(0.1,50.0);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_23099.phylip = 1 - 745;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_23099.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=6 rates=gamma;
 Prset applyto=(1) revmatpr=Dirichlet(1.0,1.0,1.0,1.0,1.0,1.0) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) shapepr=Uniform(0.1,50.0);
END;


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End of Output

