
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:23 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_7131.phylip" (19 taxa, 940 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	-2168.5463	4420.7412	0.4071	0.4071
HKYI	40	-2168.8854	4421.4193	0.2900	0.6970
HKYIG	41	-2168.4527	4422.7405	0.1498	0.8468
GTRG	44	-2165.8645	4424.1536	0.0739	0.9207
GTRI	44	-2166.2096	4424.8437	0.0523	0.9731
GTRIG	45	-2165.7720	4426.1749	0.0269	1.0000
HKY	39	-2179.5713	4440.6093	0.0000	1.0000
GTR	43	-2176.8398	4443.9028	0.0000	1.0000
F81G	39	-2203.2062	4487.8790	0.0000	1.0000
F81I	39	-2203.6751	4488.8169	0.0000	1.0000
K2PG	37	-2206.2890	4489.6955	0.0000	1.0000
F81IG	40	-2203.1042	4489.8569	0.0000	1.0000
K2PI	37	-2206.7588	4490.6352	0.0000	1.0000
K2PIG	38	-2206.1622	4491.6141	0.0000	1.0000
SYMG	41	-2205.4523	4496.7397	0.0000	1.0000
SYMI	41	-2205.9589	4497.7530	0.0000	1.0000
SYMIG	42	-2205.3315	4498.6897	0.0000	1.0000
F81	38	-2213.1283	4505.5463	0.0000	1.0000
K2P	36	-2216.6667	4508.2835	0.0000	1.0000
SYM	40	-2215.4837	4514.6158	0.0000	1.0000
JC69G	36	-2237.0528	4549.0558	0.0000	1.0000
JC69I	36	-2237.5685	4550.0871	0.0000	1.0000
JC69IG	37	-2236.9361	4550.9896	0.0000	1.0000
JC69	35	-2246.9216	4566.6307	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-2168.5463	4417.0927	0.3729	0.3729
HKYI	40	-2168.8854	4417.7708	0.2657	0.6386
HKYIG	41	-2168.4527	4418.9053	0.1507	0.7892
GTRG	44	-2165.8645	4419.7290	0.0998	0.8890
GTRI	44	-2166.2096	4420.4191	0.0707	0.9597
GTRIG	45	-2165.7720	4421.5440	0.0403	1.0000
HKY	39	-2179.5713	4437.1426	0.0000	1.0000
GTR	43	-2176.8398	4439.6796	0.0000	1.0000
F81G	39	-2203.2062	4484.4123	0.0000	1.0000
F81I	39	-2203.6751	4485.3502	0.0000	1.0000
F81IG	40	-2203.1042	4486.2084	0.0000	1.0000
K2PG	37	-2206.2890	4486.5780	0.0000	1.0000
K2PI	37	-2206.7588	4487.5176	0.0000	1.0000
K2PIG	38	-2206.1622	4488.3244	0.0000	1.0000
SYMG	41	-2205.4523	4492.9046	0.0000	1.0000
SYMI	41	-2205.9589	4493.9178	0.0000	1.0000
SYMIG	42	-2205.3315	4494.6629	0.0000	1.0000
F81	38	-2213.1283	4502.2566	0.0000	1.0000
K2P	36	-2216.6667	4505.3333	0.0000	1.0000
SYM	40	-2215.4837	4510.9673	0.0000	1.0000
JC69G	36	-2237.0528	4546.1056	0.0000	1.0000
JC69I	36	-2237.5685	4547.1370	0.0000	1.0000
JC69IG	37	-2236.9361	4547.8721	0.0000	1.0000
JC69	35	-2246.9216	4563.8431	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-2168.5463	4610.9279	0.5718	0.5718
HKYI	40	-2168.8854	4611.6060	0.4074	0.9792
HKYIG	41	-2168.4527	4617.5864	0.0205	0.9997
HKY	39	-2179.5713	4626.1319	0.0003	1.0000
GTRG	44	-2165.8645	4632.9478	0.0000	1.0000
GTRI	44	-2166.2096	4633.6378	0.0000	1.0000
GTRIG	45	-2165.7720	4639.6086	0.0000	1.0000
GTR	43	-2176.8398	4648.0525	0.0000	1.0000
K2PG	37	-2206.2890	4665.8755	0.0000	1.0000
K2PI	37	-2206.7588	4666.8152	0.0000	1.0000
K2PIG	38	-2206.1622	4672.4679	0.0000	1.0000
F81G	39	-2203.2062	4673.4016	0.0000	1.0000
F81I	39	-2203.6751	4674.3395	0.0000	1.0000
K2P	36	-2216.6667	4679.7850	0.0000	1.0000
F81IG	40	-2203.1042	4680.0436	0.0000	1.0000
F81	38	-2213.1283	4686.4000	0.0000	1.0000
SYMG	41	-2205.4523	4691.5856	0.0000	1.0000
SYMI	41	-2205.9589	4692.5989	0.0000	1.0000
SYMIG	42	-2205.3315	4698.1899	0.0000	1.0000
SYM	40	-2215.4837	4704.8025	0.0000	1.0000
JC69G	36	-2237.0528	4720.5573	0.0000	1.0000
JC69I	36	-2237.5685	4721.5886	0.0000	1.0000
JC69IG	37	-2236.9361	4727.1697	0.0000	1.0000
JC69	35	-2246.9216	4733.4489	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/chr3_7131.phylip = 1 - 940;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_7131.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/chr3_7131.phylip = 1 - 940;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_7131.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/chr3_7131.phylip = 1 - 940;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_7131.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

