
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:41 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/chr20_309.phylip" (19 taxa, 574 characters)

Minimum AIC  model: GTRIG
Minimum AICc model: GTRIG
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
GTRIG	45	-2003.4690	4104.7789	0.4160	0.4160
GTRG	44	-2004.8974	4105.2806	0.3237	0.7397
HKYIG	41	-2009.1518	4106.7774	0.1532	0.8929
HKYG	40	-2010.6694	4107.4926	0.1071	1.0000
GTRI	44	-2015.0568	4125.5994	0.0000	1.0000
HKYI	40	-2020.3724	4126.8986	0.0000	1.0000
F81IG	40	-2024.2807	4134.7153	0.0000	1.0000
F81G	39	-2025.5608	4134.9642	0.0000	1.0000
F81I	39	-2034.8975	4153.6377	0.0000	1.0000
SYMIG	42	-2035.0934	4160.9891	0.0000	1.0000
SYMG	41	-2036.6186	4161.7108	0.0000	1.0000
SYMI	41	-2049.4394	4187.3525	0.0000	1.0000
K2PIG	38	-2055.3624	4192.2649	0.0000	1.0000
K2PG	37	-2056.8612	4192.9687	0.0000	1.0000
JC69IG	37	-2066.1019	4211.4501	0.0000	1.0000
JC69G	36	-2067.4774	4211.9157	0.0000	1.0000
K2PI	37	-2067.1116	4213.4695	0.0000	1.0000
JC69I	36	-2077.3758	4231.7126	0.0000	1.0000
GTR	43	-2084.3721	4261.8838	0.0000	1.0000
HKY	39	-2091.8458	4267.5342	0.0000	1.0000
F81	38	-2103.8059	4289.1519	0.0000	1.0000
SYM	40	-2115.8185	4317.7908	0.0000	1.0000
K2P	36	-2134.5025	4345.9659	0.0000	1.0000
JC69	35	-2143.8754	4362.4347	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRIG	45	-2003.4690	4096.9380	0.5133	0.5133
GTRG	44	-2004.8974	4097.7948	0.3344	0.8477
HKYIG	41	-2009.1518	4100.3037	0.0954	0.9431
HKYG	40	-2010.6694	4101.3387	0.0569	1.0000
GTRI	44	-2015.0568	4118.1136	0.0000	1.0000
HKYI	40	-2020.3724	4120.7447	0.0000	1.0000
F81IG	40	-2024.2807	4128.5614	0.0000	1.0000
F81G	39	-2025.5608	4129.1215	0.0000	1.0000
F81I	39	-2034.8975	4147.7950	0.0000	1.0000
SYMIG	42	-2035.0934	4154.1868	0.0000	1.0000
SYMG	41	-2036.6186	4155.2372	0.0000	1.0000
SYMI	41	-2049.4394	4180.8789	0.0000	1.0000
K2PIG	38	-2055.3624	4186.7247	0.0000	1.0000
K2PG	37	-2056.8612	4187.7225	0.0000	1.0000
JC69IG	37	-2066.1019	4206.2039	0.0000	1.0000
JC69G	36	-2067.4774	4206.9548	0.0000	1.0000
K2PI	37	-2067.1116	4208.2232	0.0000	1.0000
JC69I	36	-2077.3758	4226.7517	0.0000	1.0000
GTR	43	-2084.3721	4254.7441	0.0000	1.0000
HKY	39	-2091.8458	4261.6915	0.0000	1.0000
F81	38	-2103.8059	4283.6118	0.0000	1.0000
SYM	40	-2115.8185	4311.6370	0.0000	1.0000
K2P	36	-2134.5025	4341.0050	0.0000	1.0000
JC69	35	-2143.8754	4357.7507	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-2010.6694	4275.4439	0.8392	0.8392
HKYIG	41	-2009.1518	4278.7615	0.1598	0.9990
GTRG	44	-2004.8974	4289.3105	0.0008	0.9998
GTRIG	45	-2003.4690	4292.8063	0.0001	0.9999
HKYI	40	-2020.3724	4294.8499	0.0001	1.0000
F81G	39	-2025.5608	4298.8740	0.0000	1.0000
F81IG	40	-2024.2807	4302.6666	0.0000	1.0000
GTRI	44	-2015.0568	4309.6293	0.0000	1.0000
F81I	39	-2034.8975	4317.5476	0.0000	1.0000
SYMG	41	-2036.6186	4333.6950	0.0000	1.0000
SYMIG	42	-2035.0934	4336.9973	0.0000	1.0000
K2PG	37	-2056.8612	4348.7698	0.0000	1.0000
K2PIG	38	-2055.3624	4352.1247	0.0000	1.0000
SYMI	41	-2049.4394	4359.3367	0.0000	1.0000
JC69G	36	-2067.4774	4363.6495	0.0000	1.0000
JC69IG	37	-2066.1019	4367.2512	0.0000	1.0000
K2PI	37	-2067.1116	4369.2705	0.0000	1.0000
JC69I	36	-2077.3758	4383.4463	0.0000	1.0000
HKY	39	-2091.8458	4431.4441	0.0000	1.0000
GTR	43	-2084.3721	4441.9072	0.0000	1.0000
F81	38	-2103.8059	4449.0117	0.0000	1.0000
SYM	40	-2115.8185	4485.7422	0.0000	1.0000
K2P	36	-2134.5025	4497.6997	0.0000	1.0000
JC69	35	-2143.8754	4510.0927	0.0000	1.0000



To specify default values for best AIC, AICc, or BIC models in MrBayes:

[Mrbayes block for the best AIC model (GTRIG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr20_309.phylip = 1 - 574;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr20_309.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=6 rates=invgamma;
 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) pinvarpr=Uniform(0.0,1.0);
END;


[Mrbayes block for the best AICc model (GTRIG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr20_309.phylip = 1 - 574;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr20_309.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=6 rates=invgamma;
 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) pinvarpr=Uniform(0.0,1.0);
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/chr20_309.phylip = 1 - 574;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr20_309.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;


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

