
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:04 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_14216.phylip" (19 taxa, 1099 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	-5755.0513	11601.8597	0.7478	0.7478
GTRIG	45	-5755.0512	11604.0340	0.2521	1.0000
SYMG	41	-5768.3709	11622.0000	0.0000	1.0000
SYMIG	42	-5768.3704	11624.1613	0.0000	1.0000
K2PG	37	-5793.2471	11663.1444	0.0000	1.0000
K2PIG	38	-5793.2374	11665.2710	0.0000	1.0000
HKYG	40	-5791.3804	11665.8610	0.0000	1.0000
HKYIG	41	-5791.3751	11668.0084	0.0000	1.0000
GTRI	44	-5804.2782	11700.3135	0.0000	1.0000
SYMI	41	-5813.1479	11711.5541	0.0000	1.0000
K2PI	37	-5834.9942	11746.6388	0.0000	1.0000
HKYI	40	-5833.0915	11749.2832	0.0000	1.0000
GTR	43	-5944.0574	11977.7016	0.0000	1.0000
SYM	40	-5954.4745	11992.0492	0.0000	1.0000
K2P	36	-5976.3465	12027.2015	0.0000	1.0000
HKY	39	-5973.2759	12027.4979	0.0000	1.0000
JC69G	36	-5978.5361	12031.5807	0.0000	1.0000
JC69IG	37	-5978.5360	12033.7224	0.0000	1.0000
F81G	39	-5978.2701	12037.4864	0.0000	1.0000
F81IG	40	-5978.2700	12039.6403	0.0000	1.0000
JC69I	36	-6014.6880	12103.8846	0.0000	1.0000
F81I	39	-6014.3467	12109.6396	0.0000	1.0000
JC69	35	-6147.1024	12366.5755	0.0000	1.0000
F81	38	-6146.4089	12371.6141	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-5755.0513	11598.1026	0.7310	0.7310
GTRIG	45	-5755.0512	11600.1024	0.2690	1.0000
SYMG	41	-5768.3709	11618.7417	0.0000	1.0000
SYMIG	42	-5768.3704	11620.7408	0.0000	1.0000
K2PG	37	-5793.2471	11660.4941	0.0000	1.0000
K2PIG	38	-5793.2374	11662.4748	0.0000	1.0000
HKYG	40	-5791.3804	11662.7608	0.0000	1.0000
HKYIG	41	-5791.3751	11664.7501	0.0000	1.0000
GTRI	44	-5804.2782	11696.5564	0.0000	1.0000
SYMI	41	-5813.1479	11708.2958	0.0000	1.0000
K2PI	37	-5834.9942	11743.9884	0.0000	1.0000
HKYI	40	-5833.0915	11746.1830	0.0000	1.0000
GTR	43	-5944.0574	11974.1148	0.0000	1.0000
SYM	40	-5954.4745	11988.9490	0.0000	1.0000
HKY	39	-5973.2759	12024.5518	0.0000	1.0000
K2P	36	-5976.3465	12024.6931	0.0000	1.0000
JC69G	36	-5978.5361	12029.0722	0.0000	1.0000
JC69IG	37	-5978.5360	12031.0721	0.0000	1.0000
F81G	39	-5978.2701	12034.5402	0.0000	1.0000
F81IG	40	-5978.2700	12036.5401	0.0000	1.0000
JC69I	36	-6014.6880	12101.3761	0.0000	1.0000
F81I	39	-6014.3467	12106.6934	0.0000	1.0000
JC69	35	-6147.1024	12364.2049	0.0000	1.0000
F81	38	-6146.4089	12368.8178	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-5755.0513	11818.1974	0.9159	0.9159
SYMG	41	-5768.3709	11823.8301	0.0548	0.9707
GTRIG	45	-5755.0512	11825.1994	0.0276	0.9983
SYMIG	42	-5768.3704	11830.8314	0.0017	1.0000
K2PG	37	-5793.2471	11845.5739	0.0000	1.0000
K2PIG	38	-5793.2374	11852.5567	0.0000	1.0000
HKYG	40	-5791.3804	11862.8471	0.0000	1.0000
HKYIG	41	-5791.3751	11869.8385	0.0000	1.0000
SYMI	41	-5813.1479	11913.3842	0.0000	1.0000
GTRI	44	-5804.2782	11916.6513	0.0000	1.0000
K2PI	37	-5834.9942	11929.0682	0.0000	1.0000
HKYI	40	-5833.0915	11946.2692	0.0000	1.0000
SYM	40	-5954.4745	12189.0353	0.0000	1.0000
GTR	43	-5944.0574	12189.2075	0.0000	1.0000
K2P	36	-5976.3465	12204.7707	0.0000	1.0000
JC69G	36	-5978.5361	12209.1498	0.0000	1.0000
JC69IG	37	-5978.5360	12216.1519	0.0000	1.0000
HKY	39	-5973.2759	12219.6358	0.0000	1.0000
F81G	39	-5978.2701	12229.6243	0.0000	1.0000
F81IG	40	-5978.2700	12236.6263	0.0000	1.0000
JC69I	36	-6014.6880	12281.4537	0.0000	1.0000
F81I	39	-6014.3467	12301.7775	0.0000	1.0000
JC69	35	-6147.1024	12539.2803	0.0000	1.0000
F81	38	-6146.4089	12558.8998	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_14216.phylip = 1 - 1099;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_14216.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_14216.phylip = 1 - 1099;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_14216.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_14216.phylip = 1 - 1099;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_14216.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

