
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:17 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_28849.phylip" (19 taxa, 586 characters)

Minimum AIC  model: GTRG
Minimum AICc model: GTRG
Minimum BIC  model: GTRG


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	-2556.9588	5209.2374	0.6842	0.6842
GTRIG	45	-2556.6654	5210.9975	0.2838	0.9680
GTRI	44	-2560.0213	5215.3624	0.0320	1.0000
HKYG	40	-2575.9186	5237.8555	0.0000	1.0000
HKYIG	41	-2575.8322	5239.9952	0.0000	1.0000
HKYI	40	-2578.4810	5242.9804	0.0000	1.0000
SYMG	41	-2579.5288	5247.3884	0.0000	1.0000
SYMIG	42	-2579.4686	5249.5892	0.0000	1.0000
SYMI	41	-2582.1769	5252.6848	0.0000	1.0000
K2PG	37	-2590.5576	5260.2466	0.0000	1.0000
K2PIG	38	-2590.5017	5262.4220	0.0000	1.0000
K2PI	37	-2592.9914	5265.1142	0.0000	1.0000
GTR	43	-2588.7773	5270.5362	0.0000	1.0000
HKY	39	-2608.1333	5299.9809	0.0000	1.0000
SYM	40	-2613.2043	5312.4269	0.0000	1.0000
K2P	36	-2624.9304	5326.7132	0.0000	1.0000
F81G	39	-2656.1111	5395.9365	0.0000	1.0000
F81IG	40	-2656.0389	5398.0962	0.0000	1.0000
F81I	39	-2657.6994	5399.1130	0.0000	1.0000
JC69G	36	-2665.4192	5407.6908	0.0000	1.0000
JC69IG	37	-2665.4071	5409.9457	0.0000	1.0000
JC69I	36	-2667.4390	5411.7305	0.0000	1.0000
F81	38	-2686.9981	5455.4149	0.0000	1.0000
JC69	35	-2697.3061	5469.1940	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-2556.9588	5201.9177	0.6493	0.6493
GTRIG	45	-2556.6654	5203.3309	0.3203	0.9696
GTRI	44	-2560.0213	5208.0426	0.0304	1.0000
HKYG	40	-2575.9186	5231.8372	0.0000	1.0000
HKYIG	41	-2575.8322	5233.6643	0.0000	1.0000
HKYI	40	-2578.4810	5236.9621	0.0000	1.0000
SYMG	41	-2579.5288	5241.0575	0.0000	1.0000
SYMIG	42	-2579.4686	5242.9372	0.0000	1.0000
SYMI	41	-2582.1769	5246.3539	0.0000	1.0000
K2PG	37	-2590.5576	5255.1153	0.0000	1.0000
K2PIG	38	-2590.5017	5257.0034	0.0000	1.0000
K2PI	37	-2592.9914	5259.9828	0.0000	1.0000
GTR	43	-2588.7773	5263.5546	0.0000	1.0000
HKY	39	-2608.1333	5294.2666	0.0000	1.0000
SYM	40	-2613.2043	5306.4086	0.0000	1.0000
K2P	36	-2624.9304	5321.8608	0.0000	1.0000
F81G	39	-2656.1111	5390.2223	0.0000	1.0000
F81IG	40	-2656.0389	5392.0779	0.0000	1.0000
F81I	39	-2657.6994	5393.3987	0.0000	1.0000
JC69G	36	-2665.4192	5402.8384	0.0000	1.0000
JC69IG	37	-2665.4071	5404.8143	0.0000	1.0000
JC69I	36	-2667.4390	5406.8781	0.0000	1.0000
F81	38	-2686.9981	5449.9963	0.0000	1.0000
JC69	35	-2697.3061	5464.6122	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-2556.9588	5394.3437	0.9054	0.9054
GTRIG	45	-2556.6654	5400.1303	0.0502	0.9556
GTRI	44	-2560.0213	5400.4687	0.0423	0.9979
HKYG	40	-2575.9186	5406.7700	0.0018	0.9998
HKYI	40	-2578.4810	5411.8949	0.0001	0.9999
HKYIG	41	-2575.8322	5412.9705	0.0001	1.0000
K2PG	37	-2590.5576	5416.9281	0.0000	1.0000
SYMG	41	-2579.5288	5420.3636	0.0000	1.0000
K2PI	37	-2592.9914	5421.7956	0.0000	1.0000
K2PIG	38	-2590.5017	5423.1896	0.0000	1.0000
SYMI	41	-2582.1769	5425.6600	0.0000	1.0000
SYMIG	42	-2579.4686	5426.6167	0.0000	1.0000
GTR	43	-2588.7773	5451.6074	0.0000	1.0000
HKY	39	-2608.1333	5464.8261	0.0000	1.0000
K2P	36	-2624.9304	5479.3003	0.0000	1.0000
SYM	40	-2613.2043	5481.3414	0.0000	1.0000
JC69G	36	-2665.4192	5560.2779	0.0000	1.0000
F81G	39	-2656.1111	5560.7817	0.0000	1.0000
F81I	39	-2657.6994	5563.9582	0.0000	1.0000
JC69I	36	-2667.4390	5564.3176	0.0000	1.0000
JC69IG	37	-2665.4071	5566.6271	0.0000	1.0000
F81IG	40	-2656.0389	5567.0107	0.0000	1.0000
F81	38	-2686.9981	5616.1825	0.0000	1.0000
JC69	35	-2697.3061	5617.6784	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_28849.phylip = 1 - 586;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_28849.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_28849.phylip = 1 - 586;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_28849.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 (GTRG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_28849.phylip = 1 - 586;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_28849.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;


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

