
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:49 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/chr5_10254.phylip" (19 taxa, 823 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	-3863.4412	7819.9723	0.9999	0.9999
GTRIG	45	-3872.3543	7840.0368	0.0000	1.0000
HKYG	40	-3879.2521	7842.6986	0.0000	1.0000
GTRI	44	-3875.0687	7843.2274	0.0000	1.0000
HKYI	40	-3886.4225	7857.0393	0.0000	1.0000
HKYIG	41	-3889.5363	7865.4824	0.0000	1.0000
SYMG	41	-3925.2653	7936.9403	0.0000	1.0000
SYMIG	42	-3925.0354	7938.7015	0.0000	1.0000
K2PG	37	-3931.1109	7939.8039	0.0000	1.0000
K2PIG	38	-3930.2376	7940.2557	0.0000	1.0000
GTR	43	-3925.2700	7941.3975	0.0000	1.0000
SYMI	41	-3930.9918	7948.3934	0.0000	1.0000
K2PI	37	-3936.3636	7950.3094	0.0000	1.0000
HKY	39	-3938.8963	7959.7773	0.0000	1.0000
SYM	40	-3987.8428	8059.8800	0.0000	1.0000
K2P	36	-3994.7540	8064.8973	0.0000	1.0000
F81G	39	-3994.6515	8071.2877	0.0000	1.0000
F81IG	40	-3994.9714	8074.1373	0.0000	1.0000
F81I	39	-3998.8624	8079.7094	0.0000	1.0000
JC69IG	37	-4031.2368	8140.0557	0.0000	1.0000
JC69G	36	-4032.6157	8140.6206	0.0000	1.0000
JC69I	36	-4036.2910	8147.9713	0.0000	1.0000
F81	38	-4050.7738	8181.3281	0.0000	1.0000
JC69	35	-4090.6780	8254.5581	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-3863.4412	7814.8823	0.9999	0.9999
GTRIG	45	-3872.3543	7834.7086	0.0000	1.0000
GTRI	44	-3875.0687	7838.1374	0.0000	1.0000
HKYG	40	-3879.2521	7838.5043	0.0000	1.0000
HKYI	40	-3886.4225	7852.8449	0.0000	1.0000
HKYIG	41	-3889.5363	7861.0727	0.0000	1.0000
SYMG	41	-3925.2653	7932.5305	0.0000	1.0000
SYMIG	42	-3925.0354	7934.0708	0.0000	1.0000
K2PG	37	-3931.1109	7936.2218	0.0000	1.0000
K2PIG	38	-3930.2376	7936.4751	0.0000	1.0000
GTR	43	-3925.2700	7936.5400	0.0000	1.0000
SYMI	41	-3930.9918	7943.9836	0.0000	1.0000
K2PI	37	-3936.3636	7946.7273	0.0000	1.0000
HKY	39	-3938.8963	7955.7926	0.0000	1.0000
SYM	40	-3987.8428	8055.6856	0.0000	1.0000
K2P	36	-3994.7540	8061.5080	0.0000	1.0000
F81G	39	-3994.6515	8067.3030	0.0000	1.0000
F81IG	40	-3994.9714	8069.9429	0.0000	1.0000
F81I	39	-3998.8624	8075.7247	0.0000	1.0000
JC69IG	37	-4031.2368	8136.4735	0.0000	1.0000
JC69G	36	-4032.6157	8137.2313	0.0000	1.0000
JC69I	36	-4036.2910	8144.5820	0.0000	1.0000
F81	38	-4050.7738	8177.5475	0.0000	1.0000
JC69	35	-4090.6780	8251.3561	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-3863.4412	8022.2524	0.9156	0.9156
HKYG	40	-3879.2521	8027.0225	0.0843	0.9999
HKYI	40	-3886.4225	8041.3631	0.0001	1.0000
GTRI	44	-3875.0687	8045.5075	0.0000	1.0000
GTRIG	45	-3872.3543	8046.7917	0.0000	1.0000
HKYIG	41	-3889.5363	8054.3039	0.0000	1.0000
K2PG	37	-3931.1109	8110.6012	0.0000	1.0000
K2PIG	38	-3930.2376	8115.5675	0.0000	1.0000
K2PI	37	-3936.3636	8121.1067	0.0000	1.0000
SYMG	41	-3925.2653	8125.7617	0.0000	1.0000
SYMIG	42	-3925.0354	8132.0149	0.0000	1.0000
SYMI	41	-3930.9918	8137.2148	0.0000	1.0000
GTR	43	-3925.2700	8139.1971	0.0000	1.0000
HKY	39	-3938.8963	8139.5979	0.0000	1.0000
K2P	36	-3994.7540	8231.1744	0.0000	1.0000
SYM	40	-3987.8428	8244.2038	0.0000	1.0000
F81G	39	-3994.6515	8251.1083	0.0000	1.0000
F81IG	40	-3994.9714	8258.4611	0.0000	1.0000
F81I	39	-3998.8624	8259.5300	0.0000	1.0000
JC69G	36	-4032.6157	8306.8977	0.0000	1.0000
JC69IG	37	-4031.2368	8310.8529	0.0000	1.0000
JC69I	36	-4036.2910	8314.2484	0.0000	1.0000
F81	38	-4050.7738	8356.6399	0.0000	1.0000
JC69	35	-4090.6780	8416.3095	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/chr5_10254.phylip = 1 - 823;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_10254.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/chr5_10254.phylip = 1 - 823;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_10254.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/chr5_10254.phylip = 1 - 823;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_10254.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;


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End of Output

