
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:43 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/chr2_22128.phylip" (19 taxa, 935 characters)

Minimum AIC  model: HKYI
Minimum AICc model: HKYI
Minimum BIC  model: HKYI


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
HKYI	40	-3753.2355	7590.1399	0.5399	0.5399
HKYIG	41	-3752.5494	7590.9555	0.3591	0.8990
HKYG	40	-3755.1693	7594.0076	0.0781	0.9770
GTRI	44	-3752.6114	7597.6723	0.0125	0.9895
GTRIG	45	-3751.8827	7598.4222	0.0086	0.9981
GTRG	44	-3754.4979	7601.4453	0.0019	1.0000
SYMIG	42	-3802.5108	7693.0709	0.0000	1.0000
SYMG	41	-3803.7090	7693.2746	0.0000	1.0000
SYMI	41	-3803.8477	7693.5521	0.0000	1.0000
K2PIG	38	-3807.7855	7694.8790	0.0000	1.0000
K2PI	37	-3808.8756	7694.8861	0.0000	1.0000
K2PG	37	-3809.1907	7695.5163	0.0000	1.0000
F81I	39	-3835.9473	7753.3807	0.0000	1.0000
F81IG	40	-3835.2303	7754.1295	0.0000	1.0000
F81G	39	-3837.0577	7755.6014	0.0000	1.0000
HKY	39	-3851.2568	7783.9997	0.0000	1.0000
GTR	43	-3850.2175	7790.6819	0.0000	1.0000
JC69I	36	-3884.4588	7843.8841	0.0000	1.0000
JC69IG	37	-3883.7643	7844.6635	0.0000	1.0000
JC69G	36	-3885.3888	7845.7441	0.0000	1.0000
SYM	40	-3893.1676	7870.0042	0.0000	1.0000
K2P	36	-3899.3232	7873.6130	0.0000	1.0000
F81	38	-3923.6528	7926.6136	0.0000	1.0000
JC69	35	-3969.0072	8010.8175	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYI	40	-3753.2355	7586.4710	0.5153	0.5153
HKYIG	41	-3752.5494	7587.0988	0.3765	0.8918
HKYG	40	-3755.1693	7590.3387	0.0745	0.9663
GTRI	44	-3752.6114	7593.2228	0.0176	0.9839
GTRIG	45	-3751.8827	7593.7653	0.0134	0.9973
GTRG	44	-3754.4979	7596.9959	0.0027	1.0000
SYMIG	42	-3802.5108	7689.0216	0.0000	1.0000
SYMG	41	-3803.7090	7689.4180	0.0000	1.0000
SYMI	41	-3803.8477	7689.6954	0.0000	1.0000
K2PIG	38	-3807.7855	7691.5710	0.0000	1.0000
K2PI	37	-3808.8756	7691.7512	0.0000	1.0000
K2PG	37	-3809.1907	7692.3814	0.0000	1.0000
F81I	39	-3835.9473	7749.8946	0.0000	1.0000
F81IG	40	-3835.2303	7750.4606	0.0000	1.0000
F81G	39	-3837.0577	7752.1154	0.0000	1.0000
HKY	39	-3851.2568	7780.5137	0.0000	1.0000
GTR	43	-3850.2175	7786.4349	0.0000	1.0000
JC69I	36	-3884.4588	7840.9175	0.0000	1.0000
JC69IG	37	-3883.7643	7841.5286	0.0000	1.0000
JC69G	36	-3885.3888	7842.7775	0.0000	1.0000
SYM	40	-3893.1676	7866.3353	0.0000	1.0000
K2P	36	-3899.3232	7870.6464	0.0000	1.0000
F81	38	-3923.6528	7923.3055	0.0000	1.0000
JC69	35	-3969.0072	8008.0144	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYI	40	-3753.2355	7780.0928	0.8268	0.8268
HKYG	40	-3755.1693	7783.9605	0.1195	0.9463
HKYIG	41	-3752.5494	7785.5612	0.0537	1.0000
GTRI	44	-3752.6114	7806.2069	0.0000	1.0000
GTRG	44	-3754.4979	7809.9799	0.0000	1.0000
GTRIG	45	-3751.8827	7811.5899	0.0000	1.0000
K2PI	37	-3808.8756	7870.8514	0.0000	1.0000
K2PG	37	-3809.1907	7871.4816	0.0000	1.0000
K2PIG	38	-3807.7855	7875.5117	0.0000	1.0000
SYMG	41	-3803.7090	7887.8804	0.0000	1.0000
SYMI	41	-3803.8477	7888.1578	0.0000	1.0000
SYMIG	42	-3802.5108	7892.3245	0.0000	1.0000
F81I	39	-3835.9473	7938.6759	0.0000	1.0000
F81G	39	-3837.0577	7940.8967	0.0000	1.0000
F81IG	40	-3835.2303	7944.0825	0.0000	1.0000
HKY	39	-3851.2568	7969.2950	0.0000	1.0000
GTR	43	-3850.2175	7994.5784	0.0000	1.0000
JC69I	36	-3884.4588	8015.1772	0.0000	1.0000
JC69G	36	-3885.3888	8017.0372	0.0000	1.0000
JC69IG	37	-3883.7643	8020.6289	0.0000	1.0000
K2P	36	-3899.3232	8044.9061	0.0000	1.0000
SYM	40	-3893.1676	8059.9571	0.0000	1.0000
F81	38	-3923.6528	8107.2463	0.0000	1.0000
JC69	35	-3969.0072	8177.4335	0.0000	1.0000



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

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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_22128.phylip = 1 - 935;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_22128.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=propinv;
 Prset applyto=(1) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) tratiopr=Beta(1.0,1.0) pinvarpr=Uniform(0.0,1.0);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_22128.phylip = 1 - 935;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_22128.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=propinv;
 Prset applyto=(1) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) tratiopr=Beta(1.0,1.0) pinvarpr=Uniform(0.0,1.0);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_22128.phylip = 1 - 935;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr2_22128.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=propinv;
 Prset applyto=(1) statefreqpr=Dirichlet(1.0,1.0,1.0,1.0) tratiopr=Beta(1.0,1.0) pinvarpr=Uniform(0.0,1.0);
END;


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

