
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
13:13 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_10804.phylip" (19 taxa, 514 characters)

Minimum AIC  model: HKYG
Minimum AICc model: HKYG
Minimum BIC  model: K2PG


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	-1393.8924	2874.7192	0.3848	0.3848
HKYI	40	-1394.5152	2875.9648	0.2064	0.5912
HKYIG	41	-1393.8671	2877.0307	0.1211	0.7123
K2PG	37	-1398.8458	2877.5993	0.0912	0.8035
GTRG	44	-1390.9334	2878.3103	0.0639	0.8674
K2PI	37	-1399.4383	2878.7841	0.0504	0.9178
K2PIG	38	-1398.8148	2879.8695	0.0293	0.9471
GTRI	44	-1391.7811	2880.0056	0.0274	0.9745
GTRIG	45	-1390.9120	2880.6701	0.0196	0.9941
SYMG	41	-1397.5390	2884.3747	0.0031	0.9972
SYMI	41	-1398.2553	2885.8072	0.0015	0.9987
SYMIG	42	-1397.5100	2886.6887	0.0010	0.9997
HKY	39	-1402.5147	2889.6117	0.0002	0.9999
GTR	43	-1399.0447	2892.1404	0.0001	1.0000
K2P	36	-1407.7392	2893.0634	0.0000	1.0000
SYM	40	-1405.9369	2898.8082	0.0000	1.0000
F81G	39	-1422.3573	2929.2968	0.0000	1.0000
F81I	39	-1422.8665	2930.3152	0.0000	1.0000
JC69G	36	-1426.5963	2930.7774	0.0000	1.0000
F81IG	40	-1422.3398	2931.6141	0.0000	1.0000
JC69I	36	-1427.0874	2931.7596	0.0000	1.0000
JC69IG	37	-1426.5758	2933.0591	0.0000	1.0000
F81	38	-1430.2667	2942.7734	0.0000	1.0000
JC69	35	-1434.7091	2944.6901	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-1393.8924	2867.7847	0.3517	0.3517
HKYI	40	-1394.5152	2869.0304	0.1886	0.5403
HKYIG	41	-1393.8671	2869.7341	0.1327	0.6730
GTRG	44	-1390.9334	2869.8668	0.1242	0.7972
GTRI	44	-1391.7811	2871.5621	0.0532	0.8504
K2PG	37	-1398.8458	2871.6917	0.0499	0.9002
GTRIG	45	-1390.9120	2871.8240	0.0467	0.9469
K2PI	37	-1399.4383	2872.8765	0.0276	0.9745
K2PIG	38	-1398.8148	2873.6295	0.0189	0.9934
SYMG	41	-1397.5390	2877.0780	0.0034	0.9968
SYMI	41	-1398.2553	2878.5105	0.0016	0.9984
SYMIG	42	-1397.5100	2879.0200	0.0013	0.9997
HKY	39	-1402.5147	2883.0294	0.0002	0.9999
GTR	43	-1399.0447	2884.0893	0.0001	1.0000
K2P	36	-1407.7392	2887.4785	0.0000	1.0000
SYM	40	-1405.9369	2891.8737	0.0000	1.0000
F81G	39	-1422.3573	2922.7146	0.0000	1.0000
F81I	39	-1422.8665	2923.7329	0.0000	1.0000
F81IG	40	-1422.3398	2924.6796	0.0000	1.0000
JC69G	36	-1426.5963	2925.1925	0.0000	1.0000
JC69I	36	-1427.0874	2926.1747	0.0000	1.0000
JC69IG	37	-1426.5758	2927.1515	0.0000	1.0000
F81	38	-1430.2667	2936.5334	0.0000	1.0000
JC69	35	-1434.7091	2939.4181	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
K2PG	37	-1398.8458	3028.6540	0.6169	0.6169
K2PI	37	-1399.4383	3029.8388	0.3412	0.9581
K2PIG	38	-1398.8148	3034.8340	0.0281	0.9862
HKYG	40	-1393.8924	3037.4737	0.0075	0.9937
HKYI	40	-1394.5152	3038.7193	0.0040	0.9977
K2P	36	-1407.7392	3040.1985	0.0019	0.9996
HKYIG	41	-1393.8671	3043.6653	0.0003	1.0000
HKY	39	-1402.5147	3048.4761	0.0000	1.0000
SYMG	41	-1397.5390	3051.0092	0.0000	1.0000
SYMI	41	-1398.2553	3052.4417	0.0000	1.0000
GTRG	44	-1390.9334	3056.5246	0.0000	1.0000
SYMIG	42	-1397.5100	3057.1933	0.0000	1.0000
GTRI	44	-1391.7811	3058.2199	0.0000	1.0000
SYM	40	-1405.9369	3061.5627	0.0000	1.0000
GTRIG	45	-1390.9120	3062.7240	0.0000	1.0000
GTR	43	-1399.0447	3066.5049	0.0000	1.0000
JC69G	36	-1426.5963	3077.9126	0.0000	1.0000
JC69I	36	-1427.0874	3078.8948	0.0000	1.0000
JC69IG	37	-1426.5758	3084.1138	0.0000	1.0000
JC69	35	-1434.7091	3087.8959	0.0000	1.0000
F81G	39	-1422.3573	3088.1613	0.0000	1.0000
F81I	39	-1422.8665	3089.1796	0.0000	1.0000
F81IG	40	-1422.3398	3094.3686	0.0000	1.0000
F81	38	-1430.2667	3097.7379	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_10804.phylip = 1 - 514;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_10804.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_10804.phylip = 1 - 514;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_10804.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 (K2PG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_10804.phylip = 1 - 514;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_10804.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 Prset applyto=(1) statefreqpr=Fixed(Equal) tratiopr=Beta(1.0,1.0) shapepr=Uniform(0.1,50.0);
END;


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End of Output

