
Output from mraic.pl version 1.4.4 by Johan Nylander
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12:42 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/chr6_9807.phylip" (19 taxa, 314 characters)

Minimum AIC  model: GTRI
Minimum AICc model: GTRI
Minimum BIC  model: K2PI


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
GTRI	44	-905.2377	1913.1965	0.5658	0.5658
GTRG	44	-906.5625	1915.8461	0.1504	0.7162
GTRIG	45	-905.2916	1916.0309	0.1372	0.8534
HKYI	40	-912.6538	1917.3223	0.0719	0.9253
HKYIG	41	-911.9638	1918.5894	0.0382	0.9635
HKYG	40	-913.4376	1918.8899	0.0328	0.9963
K2PI	37	-919.7305	1923.6495	0.0030	0.9993
K2PIG	38	-920.6481	1928.0745	0.0003	0.9997
K2PG	37	-922.7743	1929.7369	0.0001	0.9998
SYMI	41	-917.5547	1929.7712	0.0001	1.0000
SYMG	41	-919.2413	1933.1444	0.0000	1.0000
SYMIG	42	-918.6716	1934.6716	0.0000	1.0000
GTR	43	-919.3964	1938.8076	0.0000	1.0000
HKY	39	-925.4233	1940.2335	0.0000	1.0000
K2P	36	-935.4151	1952.4476	0.0000	1.0000
SYM	40	-931.5004	1955.0155	0.0000	1.0000
F81IG	40	-934.3083	1960.6312	0.0000	1.0000
F81G	39	-938.3137	1966.0143	0.0000	1.0000
F81I	39	-938.8013	1966.9895	0.0000	1.0000
JC69IG	37	-942.5252	1969.2387	0.0000	1.0000
JC69I	36	-945.3317	1972.2808	0.0000	1.0000
JC69G	36	-946.7586	1975.1345	0.0000	1.0000
F81	38	-950.0091	1986.7963	0.0000	1.0000
JC69	35	-958.5694	1996.2035	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRI	44	-905.2377	1898.4753	0.5927	0.5927
GTRIG	45	-905.2916	1900.5831	0.2066	0.7993
GTRG	44	-906.5625	1901.1250	0.1576	0.9569
HKYI	40	-912.6538	1905.3077	0.0195	0.9764
HKYIG	41	-911.9638	1905.9277	0.0143	0.9906
HKYG	40	-913.4376	1906.8752	0.0089	0.9995
K2PI	37	-919.7305	1913.4611	0.0003	0.9999
SYMI	41	-917.5547	1917.1094	0.0001	0.9999
K2PIG	38	-920.6481	1917.2963	0.0000	1.0000
K2PG	37	-922.7743	1919.5485	0.0000	1.0000
SYMG	41	-919.2413	1920.4826	0.0000	1.0000
SYMIG	42	-918.6716	1921.3432	0.0000	1.0000
GTR	43	-919.3964	1924.7927	0.0000	1.0000
HKY	39	-925.4233	1928.8466	0.0000	1.0000
K2P	36	-935.4151	1942.8303	0.0000	1.0000
SYM	40	-931.5004	1943.0008	0.0000	1.0000
F81IG	40	-934.3083	1948.6166	0.0000	1.0000
F81G	39	-938.3137	1954.6274	0.0000	1.0000
F81I	39	-938.8013	1955.6026	0.0000	1.0000
JC69IG	37	-942.5252	1959.0503	0.0000	1.0000
JC69I	36	-945.3317	1962.6635	0.0000	1.0000
JC69G	36	-946.7586	1965.5172	0.0000	1.0000
F81	38	-950.0091	1976.0181	0.0000	1.0000
JC69	35	-958.5694	1987.1388	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
K2PI	37	-919.7305	2052.1886	0.7097	0.7097
HKYI	40	-912.6538	2055.2834	0.1510	0.8608
HKYG	40	-913.4376	2056.8510	0.0690	0.9297
K2PG	37	-922.7743	2058.2761	0.0338	0.9636
HKYIG	41	-911.9638	2059.6528	0.0170	0.9806
K2PIG	38	-920.6481	2059.7732	0.0160	0.9966
GTRI	44	-905.2377	2063.4486	0.0025	0.9991
GTRG	44	-906.5625	2066.0983	0.0007	0.9998
GTRIG	45	-905.2916	2069.3058	0.0001	0.9999
SYMI	41	-917.5547	2070.8346	0.0001	1.0000
SYMG	41	-919.2413	2074.2077	0.0000	1.0000
HKY	39	-925.4233	2075.0729	0.0000	1.0000
K2P	36	-935.4151	2077.8084	0.0000	1.0000
SYMIG	42	-918.6716	2078.8177	0.0000	1.0000
GTR	43	-919.3964	2086.0166	0.0000	1.0000
SYM	40	-931.5004	2092.9765	0.0000	1.0000
JC69I	36	-945.3317	2097.6416	0.0000	1.0000
JC69IG	37	-942.5252	2097.7779	0.0000	1.0000
F81IG	40	-934.3083	2098.5923	0.0000	1.0000
JC69G	36	-946.7586	2100.4953	0.0000	1.0000
F81G	39	-938.3137	2100.8537	0.0000	1.0000
F81I	39	-938.8013	2101.8289	0.0000	1.0000
JC69	35	-958.5694	2118.3675	0.0000	1.0000
F81	38	-950.0091	2118.4951	0.0000	1.0000



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

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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_9807.phylip = 1 - 314;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_9807.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=6 rates=propinv;
 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) pinvarpr=Uniform(0.0,1.0);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_9807.phylip = 1 - 314;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_9807.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=6 rates=propinv;
 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) pinvarpr=Uniform(0.0,1.0);
END;


[Mrbayes block for the best BIC model (K2PI)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_9807.phylip = 1 - 314;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr6_9807.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=propinv;
 Prset applyto=(1) statefreqpr=Fixed(Equal) tratiopr=Beta(1.0,1.0) pinvarpr=Uniform(0.0,1.0);
END;


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End of Output

