
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:16 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/chr11_6303.phylip" (19 taxa, 635 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	-2443.2868	4972.0956	0.7166	0.7166
HKYIG	41	-2443.1906	4974.1890	0.2516	0.9682
GTRG	44	-2442.5284	4979.7687	0.0155	0.9837
HKYI	40	-2447.4695	4980.4608	0.0109	0.9946
GTRIG	45	-2442.4216	4981.8720	0.0054	1.0000
GTRI	44	-2449.4234	4993.5586	0.0000	1.0000
HKY	39	-2494.4190	5072.0818	0.0000	1.0000
GTR	43	-2491.7828	5075.9684	0.0000	1.0000
F81I	39	-2513.4372	5110.1180	0.0000	1.0000
F81G	39	-2514.1157	5111.4752	0.0000	1.0000
SYMG	41	-2512.0620	5111.9318	0.0000	1.0000
F81IG	40	-2513.9041	5113.3302	0.0000	1.0000
SYMIG	42	-2511.7278	5113.5569	0.0000	1.0000
SYMI	41	-2517.2846	5122.3769	0.0000	1.0000
K2PG	37	-2522.1895	5123.0892	0.0000	1.0000
K2PIG	38	-2526.0473	5133.0678	0.0000	1.0000
K2PI	37	-2531.3316	5141.3734	0.0000	1.0000
F81	38	-2553.6305	5188.2341	0.0000	1.0000
SYM	40	-2563.7669	5213.0557	0.0000	1.0000
K2P	36	-2576.1824	5228.8197	0.0000	1.0000
JC69G	36	-2578.1424	5232.7397	0.0000	1.0000
JC69IG	37	-2577.9726	5234.6555	0.0000	1.0000
JC69I	36	-2581.9420	5240.3388	0.0000	1.0000
JC69	35	-2623.0306	5320.2682	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-2443.2868	4966.5737	0.6778	0.6778
HKYIG	41	-2443.1906	4968.3812	0.2745	0.9523
GTRG	44	-2442.5284	4973.0569	0.0265	0.9788
GTRIG	45	-2442.4216	4974.8431	0.0108	0.9896
HKYI	40	-2447.4695	4974.9390	0.0103	1.0000
GTRI	44	-2449.4234	4986.8467	0.0000	1.0000
HKY	39	-2494.4190	5066.8381	0.0000	1.0000
GTR	43	-2491.7828	5069.5657	0.0000	1.0000
F81I	39	-2513.4372	5104.8743	0.0000	1.0000
SYMG	41	-2512.0620	5106.1240	0.0000	1.0000
F81G	39	-2514.1157	5106.2315	0.0000	1.0000
SYMIG	42	-2511.7278	5107.4555	0.0000	1.0000
F81IG	40	-2513.9041	5107.8083	0.0000	1.0000
SYMI	41	-2517.2846	5116.5692	0.0000	1.0000
K2PG	37	-2522.1895	5118.3790	0.0000	1.0000
K2PIG	38	-2526.0473	5128.0946	0.0000	1.0000
K2PI	37	-2531.3316	5136.6632	0.0000	1.0000
F81	38	-2553.6305	5183.2609	0.0000	1.0000
SYM	40	-2563.7669	5207.5338	0.0000	1.0000
K2P	36	-2576.1824	5224.3649	0.0000	1.0000
JC69G	36	-2578.1424	5228.2849	0.0000	1.0000
JC69IG	37	-2577.9726	5229.9452	0.0000	1.0000
JC69I	36	-2581.9420	5235.8840	0.0000	1.0000
JC69	35	-2623.0306	5316.0612	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-2443.2868	5144.7187	0.9443	0.9443
HKYIG	41	-2443.1906	5150.9798	0.0413	0.9856
HKYI	40	-2447.4695	5153.0840	0.0144	1.0000
GTRG	44	-2442.5284	5169.0164	0.0000	1.0000
GTRIG	45	-2442.4216	5175.2562	0.0000	1.0000
GTRI	44	-2449.4234	5182.8062	0.0000	1.0000
HKY	39	-2494.4190	5240.5295	0.0000	1.0000
GTR	43	-2491.7828	5261.0716	0.0000	1.0000
F81I	39	-2513.4372	5278.5657	0.0000	1.0000
F81G	39	-2514.1157	5279.9229	0.0000	1.0000
K2PG	37	-2522.1895	5283.1631	0.0000	1.0000
F81IG	40	-2513.9041	5285.9533	0.0000	1.0000
SYMG	41	-2512.0620	5288.7227	0.0000	1.0000
SYMIG	42	-2511.7278	5294.5078	0.0000	1.0000
K2PIG	38	-2526.0473	5297.3323	0.0000	1.0000
SYMI	41	-2517.2846	5299.1678	0.0000	1.0000
K2PI	37	-2531.3316	5301.4473	0.0000	1.0000
F81	38	-2553.6305	5352.4987	0.0000	1.0000
K2P	36	-2576.1824	5384.6954	0.0000	1.0000
SYM	40	-2563.7669	5385.6788	0.0000	1.0000
JC69G	36	-2578.1424	5388.6154	0.0000	1.0000
JC69IG	37	-2577.9726	5394.7294	0.0000	1.0000
JC69I	36	-2581.9420	5396.2145	0.0000	1.0000
JC69	35	-2623.0306	5471.9381	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/chr11_6303.phylip = 1 - 635;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr11_6303.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/chr11_6303.phylip = 1 - 635;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr11_6303.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/chr11_6303.phylip = 1 - 635;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr11_6303.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

