
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:27 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_5478.phylip" (19 taxa, 1261 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	-5431.6061	10954.4688	0.5893	0.5893
GTRIG	45	-5430.8917	10955.1907	0.4107	1.0000
GTRI	44	-5442.8767	10977.0101	0.0000	1.0000
HKYG	40	-5451.4780	10985.6445	0.0000	1.0000
HKYIG	41	-5451.1513	10987.1278	0.0000	1.0000
HKYI	40	-5462.8604	11008.4094	0.0000	1.0000
SYMG	41	-5479.0531	11042.9316	0.0000	1.0000
SYMIG	42	-5478.8947	11044.7549	0.0000	1.0000
K2PG	37	-5488.0898	11052.4789	0.0000	1.0000
K2PIG	38	-5487.9180	11054.2615	0.0000	1.0000
SYMI	41	-5493.8424	11072.5101	0.0000	1.0000
K2PI	37	-5502.5527	11081.4047	0.0000	1.0000
GTR	43	-5572.8068	11234.7229	0.0000	1.0000
F81G	39	-5586.1057	11252.7668	0.0000	1.0000
F81IG	40	-5585.7817	11254.2519	0.0000	1.0000
HKY	39	-5596.0678	11272.6909	0.0000	1.0000
F81I	39	-5604.6956	11289.9464	0.0000	1.0000
JC69G	36	-5611.1528	11296.4821	0.0000	1.0000
JC69IG	37	-5610.8814	11298.0621	0.0000	1.0000
JC69I	36	-5622.2380	11318.6524	0.0000	1.0000
SYM	40	-5618.5379	11319.7643	0.0000	1.0000
K2P	36	-5634.0197	11342.2159	0.0000	1.0000
F81	38	-5725.7585	11529.9425	0.0000	1.0000
JC69	35	-5752.7924	11577.6420	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-5431.6061	10951.2123	0.5709	0.5709
GTRIG	45	-5430.8917	10951.7833	0.4291	1.0000
GTRI	44	-5442.8767	10973.7535	0.0000	1.0000
HKYG	40	-5451.4780	10982.9559	0.0000	1.0000
HKYIG	41	-5451.1513	10984.3025	0.0000	1.0000
HKYI	40	-5462.8604	11005.7209	0.0000	1.0000
SYMG	41	-5479.0531	11040.1063	0.0000	1.0000
SYMIG	42	-5478.8947	11041.7894	0.0000	1.0000
K2PG	37	-5488.0898	11050.1796	0.0000	1.0000
K2PIG	38	-5487.9180	11051.8359	0.0000	1.0000
SYMI	41	-5493.8424	11069.6848	0.0000	1.0000
K2PI	37	-5502.5527	11079.1054	0.0000	1.0000
GTR	43	-5572.8068	11231.6136	0.0000	1.0000
F81G	39	-5586.1057	11250.2115	0.0000	1.0000
F81IG	40	-5585.7817	11251.5633	0.0000	1.0000
HKY	39	-5596.0678	11270.1356	0.0000	1.0000
F81I	39	-5604.6956	11287.3911	0.0000	1.0000
JC69G	36	-5611.1528	11294.3057	0.0000	1.0000
JC69IG	37	-5610.8814	11295.7628	0.0000	1.0000
JC69I	36	-5622.2380	11316.4759	0.0000	1.0000
SYM	40	-5618.5379	11317.0758	0.0000	1.0000
K2P	36	-5634.0197	11340.0394	0.0000	1.0000
F81	38	-5725.7585	11527.5170	0.0000	1.0000
JC69	35	-5752.7924	11575.5848	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-5431.6061	11177.3573	0.9421	0.9421
GTRIG	45	-5430.8917	11183.0680	0.0542	0.9963
HKYG	40	-5451.4780	11188.5424	0.0035	0.9999
HKYIG	41	-5451.1513	11195.0286	0.0001	1.0000
GTRI	44	-5442.8767	11199.8985	0.0000	1.0000
HKYI	40	-5462.8604	11211.3073	0.0000	1.0000
K2PG	37	-5488.0898	11240.3471	0.0000	1.0000
K2PIG	38	-5487.9180	11247.1430	0.0000	1.0000
SYMG	41	-5479.0531	11250.8324	0.0000	1.0000
SYMIG	42	-5478.8947	11257.6552	0.0000	1.0000
K2PI	37	-5502.5527	11269.2729	0.0000	1.0000
SYMI	41	-5493.8424	11280.4109	0.0000	1.0000
F81G	39	-5586.1057	11450.6583	0.0000	1.0000
GTR	43	-5572.8068	11452.6190	0.0000	1.0000
F81IG	40	-5585.7817	11457.1498	0.0000	1.0000
HKY	39	-5596.0678	11470.5823	0.0000	1.0000
JC69G	36	-5611.1528	11479.3334	0.0000	1.0000
JC69IG	37	-5610.8814	11485.9303	0.0000	1.0000
F81I	39	-5604.6956	11487.8379	0.0000	1.0000
JC69I	36	-5622.2380	11501.5037	0.0000	1.0000
SYM	40	-5618.5379	11522.6622	0.0000	1.0000
K2P	36	-5634.0197	11525.0672	0.0000	1.0000
F81	38	-5725.7585	11722.8241	0.0000	1.0000
JC69	35	-5752.7924	11755.4730	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_5478.phylip = 1 - 1261;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_5478.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_5478.phylip = 1 - 1261;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_5478.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_5478.phylip = 1 - 1261;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_5478.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

