
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:14 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/chr1_5437.phylip" (19 taxa, 775 characters)

Minimum AIC  model: GTRG
Minimum AICc model: GTRG
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
GTRG	44	-2353.3971	4800.2189	0.9135	0.9135
HKYIG	41	-2359.7715	4806.2414	0.0450	0.9585
HKYG	40	-2361.1250	4806.7187	0.0354	0.9939
GTRIG	45	-2357.3167	4810.3123	0.0059	0.9998
HKYI	40	-2366.2588	4816.9863	0.0002	1.0000
GTRI	44	-2364.6889	4822.8025	0.0000	1.0000
K2PIG	38	-2378.3330	4836.6931	0.0000	1.0000
K2PG	37	-2379.8377	4837.4909	0.0000	1.0000
SYMIG	42	-2375.9968	4840.9281	0.0000	1.0000
SYMG	41	-2377.6901	4842.0788	0.0000	1.0000
K2PI	37	-2384.5830	4846.9814	0.0000	1.0000
SYMI	41	-2382.5037	4851.7060	0.0000	1.0000
F81IG	40	-2388.8102	4862.0891	0.0000	1.0000
F81G	39	-2390.4169	4863.0787	0.0000	1.0000
F81I	39	-2394.7027	4871.6504	0.0000	1.0000
JC69IG	37	-2404.2544	4886.3243	0.0000	1.0000
JC69G	36	-2406.3949	4888.3996	0.0000	1.0000
JC69I	36	-2410.0535	4895.7168	0.0000	1.0000
GTR	43	-2410.1663	4911.5090	0.0000	1.0000
HKY	39	-2416.9747	4916.1943	0.0000	1.0000
K2P	36	-2435.8406	4947.2910	0.0000	1.0000
SYM	40	-2433.6835	4951.8356	0.0000	1.0000
F81	38	-2445.3719	4970.7709	0.0000	1.0000
JC69	35	-2459.1866	4991.7832	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-2353.3971	4794.7942	0.9383	0.9383
HKYIG	41	-2359.7715	4801.5429	0.0321	0.9704
HKYG	40	-2361.1250	4802.2500	0.0226	0.9930
GTRIG	45	-2357.3167	4804.6333	0.0069	0.9999
HKYI	40	-2366.2588	4812.5177	0.0001	1.0000
GTRI	44	-2364.6889	4817.3778	0.0000	1.0000
K2PIG	38	-2378.3330	4832.6659	0.0000	1.0000
K2PG	37	-2379.8377	4833.6754	0.0000	1.0000
SYMIG	42	-2375.9968	4835.9936	0.0000	1.0000
SYMG	41	-2377.6901	4837.3803	0.0000	1.0000
K2PI	37	-2384.5830	4843.1659	0.0000	1.0000
SYMI	41	-2382.5037	4847.0075	0.0000	1.0000
F81IG	40	-2388.8102	4857.6205	0.0000	1.0000
F81G	39	-2390.4169	4858.8338	0.0000	1.0000
F81I	39	-2394.7027	4867.4055	0.0000	1.0000
JC69IG	37	-2404.2544	4882.5089	0.0000	1.0000
JC69G	36	-2406.3949	4884.7898	0.0000	1.0000
JC69I	36	-2410.0535	4892.1070	0.0000	1.0000
GTR	43	-2410.1663	4906.3325	0.0000	1.0000
HKY	39	-2416.9747	4911.9494	0.0000	1.0000
K2P	36	-2435.8406	4943.6812	0.0000	1.0000
SYM	40	-2433.6835	4947.3670	0.0000	1.0000
F81	38	-2445.3719	4966.7438	0.0000	1.0000
JC69	35	-2459.1866	4988.3732	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-2361.1250	4988.3646	0.8704	0.8704
HKYIG	41	-2359.7715	4992.3103	0.1210	0.9914
HKYI	40	-2366.2588	4998.6322	0.0051	0.9965
GTRG	44	-2353.3971	4999.5202	0.0033	0.9998
K2PG	37	-2379.8377	5005.8314	0.0001	1.0000
K2PIG	38	-2378.3330	5009.4747	0.0000	1.0000
GTRIG	45	-2357.3167	5014.0122	0.0000	1.0000
K2PI	37	-2384.5830	5015.3219	0.0000	1.0000
GTRI	44	-2364.6889	5022.1038	0.0000	1.0000
SYMG	41	-2377.6901	5028.1477	0.0000	1.0000
SYMIG	42	-2375.9968	5031.4139	0.0000	1.0000
SYMI	41	-2382.5037	5037.7749	0.0000	1.0000
F81G	39	-2390.4169	5040.2954	0.0000	1.0000
F81IG	40	-2388.8102	5043.7350	0.0000	1.0000
F81I	39	-2394.7027	5048.8671	0.0000	1.0000
JC69G	36	-2406.3949	5052.2929	0.0000	1.0000
JC69IG	37	-2404.2544	5054.6648	0.0000	1.0000
JC69I	36	-2410.0535	5059.6101	0.0000	1.0000
HKY	39	-2416.9747	5093.4111	0.0000	1.0000
GTR	43	-2410.1663	5106.4056	0.0000	1.0000
K2P	36	-2435.8406	5111.1843	0.0000	1.0000
SYM	40	-2433.6835	5133.4815	0.0000	1.0000
F81	38	-2445.3719	5143.5526	0.0000	1.0000
JC69	35	-2459.1866	5151.2234	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/chr1_5437.phylip = 1 - 775;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_5437.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/chr1_5437.phylip = 1 - 775;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_5437.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 (HKYG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_5437.phylip = 1 - 775;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_5437.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;


-------------------------------------------------------------
End of Output

