
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:14 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_5893.phylip" (19 taxa, 515 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	-2342.9969	4782.4194	0.7570	0.7570
GTRIG	45	-2342.9968	4784.8210	0.2278	0.9848
GTRI	44	-2346.9102	4790.2459	0.0151	0.9999
SYMG	41	-2356.5417	4802.3646	0.0000	1.0000
HKYG	40	-2358.7969	4804.5136	0.0000	1.0000
SYMIG	42	-2356.5537	4804.7599	0.0000	1.0000
HKYIG	41	-2358.8015	4806.8841	0.0000	1.0000
SYMI	41	-2359.5031	4808.2874	0.0000	1.0000
HKYI	40	-2361.8432	4810.6062	0.0000	1.0000
K2PG	37	-2365.9475	4811.7903	0.0000	1.0000
K2PIG	38	-2365.9562	4814.1394	0.0000	1.0000
K2PI	37	-2368.7627	4817.4205	0.0000	1.0000
GTR	43	-2378.6476	4851.3292	0.0000	1.0000
SYM	40	-2391.9917	4870.9033	0.0000	1.0000
HKY	39	-2394.3533	4873.2751	0.0000	1.0000
K2P	36	-2402.1498	4881.8729	0.0000	1.0000
F81G	39	-2419.5106	4923.5897	0.0000	1.0000
F81IG	40	-2419.5103	4925.9405	0.0000	1.0000
JC69G	36	-2424.4745	4926.5222	0.0000	1.0000
F81I	39	-2421.5995	4927.7673	0.0000	1.0000
JC69IG	37	-2424.4645	4928.8241	0.0000	1.0000
JC69I	36	-2426.5336	4930.6404	0.0000	1.0000
F81	38	-2453.1707	4988.5683	0.0000	1.0000
JC69	35	-2458.7895	4992.8401	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-2342.9969	4773.9939	0.7205	0.7205
GTRIG	45	-2342.9968	4775.9937	0.2651	0.9856
GTRI	44	-2346.9102	4781.8204	0.0144	1.0000
SYMG	41	-2356.5417	4795.0834	0.0000	1.0000
SYMIG	42	-2356.5537	4797.1074	0.0000	1.0000
HKYG	40	-2358.7969	4797.5938	0.0000	1.0000
HKYIG	41	-2358.8015	4799.6030	0.0000	1.0000
SYMI	41	-2359.5031	4801.0062	0.0000	1.0000
HKYI	40	-2361.8432	4803.6863	0.0000	1.0000
K2PG	37	-2365.9475	4805.8951	0.0000	1.0000
K2PIG	38	-2365.9562	4807.9125	0.0000	1.0000
K2PI	37	-2368.7627	4811.5253	0.0000	1.0000
GTR	43	-2378.6476	4843.2952	0.0000	1.0000
SYM	40	-2391.9917	4863.9835	0.0000	1.0000
HKY	39	-2394.3533	4866.7067	0.0000	1.0000
K2P	36	-2402.1498	4876.2996	0.0000	1.0000
F81G	39	-2419.5106	4917.0212	0.0000	1.0000
F81IG	40	-2419.5103	4919.0207	0.0000	1.0000
JC69G	36	-2424.4745	4920.9490	0.0000	1.0000
F81I	39	-2421.5995	4921.1989	0.0000	1.0000
JC69IG	37	-2424.4645	4922.9289	0.0000	1.0000
JC69I	36	-2426.5336	4925.0672	0.0000	1.0000
F81	38	-2453.1707	4982.3414	0.0000	1.0000
JC69	35	-2458.7895	4987.5791	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-2342.9969	4960.7372	0.6714	0.6714
K2PG	37	-2365.9475	4962.9293	0.2244	0.8958
GTRIG	45	-2342.9968	4966.9812	0.0296	0.9254
HKYG	40	-2358.7969	4967.3604	0.0245	0.9498
K2PI	37	-2368.7627	4968.5595	0.0134	0.9633
GTRI	44	-2346.9102	4968.5637	0.0134	0.9767
SYMG	41	-2356.5417	4969.0942	0.0103	0.9870
K2PIG	38	-2365.9562	4969.1908	0.0098	0.9968
HKYI	40	-2361.8432	4973.4530	0.0012	0.9979
HKYIG	41	-2358.8015	4973.6138	0.0011	0.9990
SYMI	41	-2359.5031	4975.0170	0.0005	0.9996
SYMIG	42	-2356.5537	4975.3624	0.0004	1.0000
GTR	43	-2378.6476	5025.7944	0.0000	1.0000
K2P	36	-2402.1498	5029.0896	0.0000	1.0000
HKY	39	-2394.3533	5032.2292	0.0000	1.0000
SYM	40	-2391.9917	5033.7501	0.0000	1.0000
JC69G	36	-2424.4745	5073.7390	0.0000	1.0000
JC69I	36	-2426.5336	5077.8572	0.0000	1.0000
JC69IG	37	-2424.4645	5079.9631	0.0000	1.0000
F81G	39	-2419.5106	5082.5437	0.0000	1.0000
F81I	39	-2421.5995	5086.7214	0.0000	1.0000
F81IG	40	-2419.5103	5088.7873	0.0000	1.0000
JC69	35	-2458.7895	5136.1249	0.0000	1.0000
F81	38	-2453.1707	5143.6197	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/chr3_5893.phylip = 1 - 515;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_5893.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/chr3_5893.phylip = 1 - 515;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_5893.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/chr3_5893.phylip = 1 - 515;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_5893.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

