
Output from mraic.pl version 1.4.4 by Johan Nylander
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11:44 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_6767.phylip" (19 taxa, 603 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	-2206.1500	4507.3968	0.6974	0.6974
GTRIG	45	-2206.1515	4509.7357	0.2166	0.9139
GTRI	44	-2208.2421	4511.5810	0.0861	1.0000
HKYG	40	-2228.1033	4542.0430	0.0000	1.0000
HKYIG	41	-2231.0858	4550.3106	0.0000	1.0000
GTR	43	-2229.9780	4552.7253	0.0000	1.0000
HKYI	40	-2234.9269	4555.6902	0.0000	1.0000
SYMG	41	-2245.9050	4579.9489	0.0000	1.0000
HKY	39	-2250.6247	4584.7912	0.0000	1.0000
SYMI	41	-2248.6396	4585.4183	0.0000	1.0000
K2PG	37	-2254.5590	4588.0950	0.0000	1.0000
SYMIG	42	-2250.4335	4591.3170	0.0000	1.0000
K2PI	37	-2258.1770	4595.3310	0.0000	1.0000
K2PIG	38	-2258.2223	4597.6999	0.0000	1.0000
SYM	40	-2266.7470	4619.3304	0.0000	1.0000
K2P	36	-2276.6738	4630.0543	0.0000	1.0000
F81G	39	-2294.2692	4672.0801	0.0000	1.0000
F81IG	40	-2294.2661	4674.3686	0.0000	1.0000
F81I	39	-2297.7732	4679.0881	0.0000	1.0000
JC69G	36	-2312.6941	4702.0950	0.0000	1.0000
JC69IG	37	-2312.6842	4704.3454	0.0000	1.0000
JC69I	36	-2316.5535	4709.8138	0.0000	1.0000
F81	38	-2315.6499	4712.5551	0.0000	1.0000
JC69	35	-2333.5538	4741.5521	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-2206.1500	4500.3000	0.6708	0.6708
GTRIG	45	-2206.1515	4502.3031	0.2464	0.9172
GTRI	44	-2208.2421	4504.4843	0.0828	1.0000
HKYG	40	-2228.1033	4536.2067	0.0000	1.0000
HKYIG	41	-2231.0858	4544.1716	0.0000	1.0000
GTR	43	-2229.9780	4545.9561	0.0000	1.0000
HKYI	40	-2234.9269	4549.8539	0.0000	1.0000
SYMG	41	-2245.9050	4573.8099	0.0000	1.0000
HKY	39	-2250.6247	4579.2495	0.0000	1.0000
SYMI	41	-2248.6396	4579.2793	0.0000	1.0000
K2PG	37	-2254.5590	4583.1180	0.0000	1.0000
SYMIG	42	-2250.4335	4584.8670	0.0000	1.0000
K2PI	37	-2258.1770	4590.3540	0.0000	1.0000
K2PIG	38	-2258.2223	4592.4446	0.0000	1.0000
SYM	40	-2266.7470	4613.4941	0.0000	1.0000
K2P	36	-2276.6738	4625.3476	0.0000	1.0000
F81G	39	-2294.2692	4666.5383	0.0000	1.0000
F81IG	40	-2294.2661	4668.5323	0.0000	1.0000
F81I	39	-2297.7732	4673.5464	0.0000	1.0000
JC69G	36	-2312.6941	4697.3883	0.0000	1.0000
JC69IG	37	-2312.6842	4699.3684	0.0000	1.0000
JC69I	36	-2316.5535	4705.1070	0.0000	1.0000
F81	38	-2315.6499	4707.2997	0.0000	1.0000
JC69	35	-2333.5538	4737.1077	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-2206.1500	4693.9843	0.8590	0.8590
GTRI	44	-2208.2421	4698.1686	0.1060	0.9650
GTRIG	45	-2206.1515	4700.3893	0.0349	0.9999
HKYG	40	-2228.1033	4712.2834	0.0001	1.0000
HKYIG	41	-2231.0858	4724.6502	0.0000	1.0000
HKYI	40	-2234.9269	4725.9306	0.0000	1.0000
GTR	43	-2229.9780	4735.2385	0.0000	1.0000
K2PG	37	-2254.5590	4745.9889	0.0000	1.0000
HKY	39	-2250.6247	4750.9243	0.0000	1.0000
K2PI	37	-2258.1770	4753.2250	0.0000	1.0000
SYMG	41	-2245.9050	4754.2885	0.0000	1.0000
K2PIG	38	-2258.2223	4759.7175	0.0000	1.0000
SYMI	41	-2248.6396	4759.7579	0.0000	1.0000
SYMIG	42	-2250.4335	4769.7476	0.0000	1.0000
K2P	36	-2276.6738	4783.8166	0.0000	1.0000
SYM	40	-2266.7470	4789.5708	0.0000	1.0000
F81G	39	-2294.2692	4838.2131	0.0000	1.0000
F81IG	40	-2294.2661	4844.6089	0.0000	1.0000
F81I	39	-2297.7732	4845.2211	0.0000	1.0000
JC69G	36	-2312.6941	4855.8573	0.0000	1.0000
JC69IG	37	-2312.6842	4862.2393	0.0000	1.0000
JC69I	36	-2316.5535	4863.5761	0.0000	1.0000
F81	38	-2315.6499	4874.5726	0.0000	1.0000
JC69	35	-2333.5538	4891.1748	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_6767.phylip = 1 - 603;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_6767.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_6767.phylip = 1 - 603;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_6767.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_6767.phylip = 1 - 603;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_6767.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

