
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:34 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/chr6_3262.phylip" (19 taxa, 764 characters)

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


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	-3697.5979	7479.7324	0.7530	0.7530
HKYIG	41	-3697.5996	7481.9692	0.2461	0.9990
GTRG	44	-3700.0699	7493.6474	0.0007	0.9998
GTRIG	45	-3700.0670	7495.9000	0.0002	1.0000
GTRI	44	-3704.8446	7503.1969	0.0000	1.0000
HKYI	40	-3710.3453	7505.2273	0.0000	1.0000
K2PG	37	-3714.8531	7507.5795	0.0000	1.0000
K2PIG	38	-3714.8513	7509.7908	0.0000	1.0000
SYMG	41	-3719.1526	7525.0753	0.0000	1.0000
SYMIG	42	-3719.4276	7527.8649	0.0000	1.0000
K2PI	37	-3725.3272	7528.5277	0.0000	1.0000
SYMI	41	-3724.3174	7535.4048	0.0000	1.0000
HKY	39	-3764.3601	7611.0295	0.0000	1.0000
GTR	43	-3761.9751	7615.2058	0.0000	1.0000
K2P	36	-3779.6040	7634.8723	0.0000	1.0000
SYM	40	-3778.7642	7642.0651	0.0000	1.0000
F81G	39	-3798.3934	7679.0962	0.0000	1.0000
F81IG	40	-3798.3933	7681.3233	0.0000	1.0000
JC69G	36	-3808.8161	7693.2966	0.0000	1.0000
JC69IG	37	-3808.8164	7695.5062	0.0000	1.0000
F81I	39	-3811.2015	7704.7125	0.0000	1.0000
JC69I	36	-3821.2195	7718.1035	0.0000	1.0000
F81	38	-3865.3144	7810.7172	0.0000	1.0000
JC69	35	-3874.7132	7822.8878	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-3697.5979	7475.1957	0.7303	0.7303
HKYIG	41	-3697.5996	7477.1991	0.2682	0.9984
GTRG	44	-3700.0699	7488.1397	0.0011	0.9996
GTRIG	45	-3700.0670	7490.1339	0.0004	1.0000
GTRI	44	-3704.8446	7497.6893	0.0000	1.0000
HKYI	40	-3710.3453	7500.6906	0.0000	1.0000
K2PG	37	-3714.8531	7503.7062	0.0000	1.0000
K2PIG	38	-3714.8513	7505.7026	0.0000	1.0000
SYMG	41	-3719.1526	7520.3053	0.0000	1.0000
SYMIG	42	-3719.4276	7522.8552	0.0000	1.0000
K2PI	37	-3725.3272	7524.6544	0.0000	1.0000
SYMI	41	-3724.3174	7530.6348	0.0000	1.0000
HKY	39	-3764.3601	7606.7201	0.0000	1.0000
GTR	43	-3761.9751	7609.9503	0.0000	1.0000
K2P	36	-3779.6040	7631.2079	0.0000	1.0000
SYM	40	-3778.7642	7637.5285	0.0000	1.0000
F81G	39	-3798.3934	7674.7868	0.0000	1.0000
F81IG	40	-3798.3933	7676.7866	0.0000	1.0000
JC69G	36	-3808.8161	7689.6322	0.0000	1.0000
JC69IG	37	-3808.8164	7691.6329	0.0000	1.0000
F81I	39	-3811.2015	7700.4031	0.0000	1.0000
JC69I	36	-3821.2195	7714.4391	0.0000	1.0000
F81	38	-3865.3144	7806.6289	0.0000	1.0000
JC69	35	-3874.7132	7819.4263	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-3697.5979	7660.7384	0.9645	0.9645
HKYIG	41	-3697.5996	7667.3804	0.0348	0.9993
K2PG	37	-3714.8531	7675.3332	0.0007	1.0000
K2PIG	38	-3714.8513	7681.9681	0.0000	1.0000
HKYI	40	-3710.3453	7686.2333	0.0000	1.0000
GTRG	44	-3700.0699	7692.2367	0.0000	1.0000
K2PI	37	-3725.3272	7696.2814	0.0000	1.0000
GTRIG	45	-3700.0670	7698.8695	0.0000	1.0000
GTRI	44	-3704.8446	7701.7863	0.0000	1.0000
SYMG	41	-3719.1526	7710.4865	0.0000	1.0000
SYMIG	42	-3719.4276	7717.6750	0.0000	1.0000
SYMI	41	-3724.3174	7720.8160	0.0000	1.0000
HKY	39	-3764.3601	7787.6243	0.0000	1.0000
K2P	36	-3779.6040	7798.1964	0.0000	1.0000
GTR	43	-3761.9751	7809.4087	0.0000	1.0000
SYM	40	-3778.7642	7823.0712	0.0000	1.0000
F81G	39	-3798.3934	7855.6909	0.0000	1.0000
JC69G	36	-3808.8161	7856.6206	0.0000	1.0000
F81IG	40	-3798.3933	7862.3294	0.0000	1.0000
JC69IG	37	-3808.8164	7863.2599	0.0000	1.0000
F81I	39	-3811.2015	7881.3072	0.0000	1.0000
JC69I	36	-3821.2195	7881.4275	0.0000	1.0000
JC69	35	-3874.7132	7981.7762	0.0000	1.0000
F81	38	-3865.3144	7982.8945	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/chr6_3262.phylip = 1 - 764;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_3262.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/chr6_3262.phylip = 1 - 764;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_3262.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 (HKYG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_3262.phylip = 1 - 764;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_3262.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;


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End of Output

