
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:00 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/chr3_17802.phylip" (19 taxa, 872 characters)

Minimum AIC  model: GTRIG
Minimum AICc model: GTRIG
Minimum BIC  model: SYMG


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	-3171.7778	6438.5677	0.5664	0.5664
GTRG	44	-3173.2102	6439.2089	0.4111	0.9775
GTRI	44	-3176.1774	6445.1431	0.0212	0.9987
SYMIG	42	-3181.8154	6451.9878	0.0007	0.9994
SYMG	41	-3183.1734	6452.4963	0.0005	0.9999
SYMI	41	-3185.3041	6456.7576	0.0001	1.0000
HKYI	40	-3187.4729	6458.8929	0.0000	1.0000
HKYIG	41	-3188.7258	6463.6009	0.0000	1.0000
HKYG	40	-3190.5915	6465.1301	0.0000	1.0000
K2PIG	38	-3202.0499	6483.6581	0.0000	1.0000
K2PG	37	-3204.3261	6486.0239	0.0000	1.0000
K2PI	37	-3205.2035	6487.7787	0.0000	1.0000
F81IG	40	-3234.8459	6553.6388	0.0000	1.0000
F81I	39	-3238.5020	6558.7540	0.0000	1.0000
F81G	39	-3240.3767	6562.5035	0.0000	1.0000
JC69IG	37	-3253.8447	6585.0612	0.0000	1.0000
JC69I	36	-3256.9942	6589.1788	0.0000	1.0000
JC69G	36	-3259.1674	6593.5252	0.0000	1.0000
GTR	43	-3271.5448	6633.6597	0.0000	1.0000
SYM	40	-3280.5842	6645.1154	0.0000	1.0000
HKY	39	-3294.3576	6670.4652	0.0000	1.0000
K2P	36	-3306.8744	6688.9393	0.0000	1.0000
F81	38	-3341.3485	6762.2553	0.0000	1.0000
JC69	35	-3356.6248	6786.2640	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRIG	45	-3171.7778	6433.5556	0.5939	0.5939
GTRG	44	-3173.2102	6434.4205	0.3854	0.9792
GTRI	44	-3176.1774	6440.3547	0.0198	0.9991
SYMIG	42	-3181.8154	6447.6308	0.0005	0.9996
SYMG	41	-3183.1734	6448.3469	0.0004	0.9999
SYMI	41	-3185.3041	6452.6082	0.0000	1.0000
HKYI	40	-3187.4729	6454.9458	0.0000	1.0000
HKYIG	41	-3188.7258	6459.4515	0.0000	1.0000
HKYG	40	-3190.5915	6461.1831	0.0000	1.0000
K2PIG	38	-3202.0499	6480.0998	0.0000	1.0000
K2PG	37	-3204.3261	6482.6522	0.0000	1.0000
K2PI	37	-3205.2035	6484.4070	0.0000	1.0000
F81IG	40	-3234.8459	6549.6917	0.0000	1.0000
F81I	39	-3238.5020	6555.0040	0.0000	1.0000
F81G	39	-3240.3767	6558.7535	0.0000	1.0000
JC69IG	37	-3253.8447	6581.6895	0.0000	1.0000
JC69I	36	-3256.9942	6585.9884	0.0000	1.0000
JC69G	36	-3259.1674	6590.3348	0.0000	1.0000
GTR	43	-3271.5448	6629.0896	0.0000	1.0000
SYM	40	-3280.5842	6641.1684	0.0000	1.0000
HKY	39	-3294.3576	6666.7152	0.0000	1.0000
K2P	36	-3306.8744	6685.7488	0.0000	1.0000
F81	38	-3341.3485	6758.6971	0.0000	1.0000
JC69	35	-3356.6248	6783.2496	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
SYMG	41	-3183.1734	6643.9492	0.3763	0.3763
GTRG	44	-3173.2102	6644.3352	0.3102	0.6865
HKYI	40	-3187.4729	6645.7774	0.1508	0.8373
SYMIG	42	-3181.8154	6648.0039	0.0495	0.8869
SYMI	41	-3185.3041	6648.2105	0.0447	0.9316
GTRIG	45	-3171.7778	6648.2411	0.0440	0.9756
GTRI	44	-3176.1774	6650.2695	0.0160	0.9915
HKYG	40	-3190.5915	6652.0146	0.0067	0.9982
HKYIG	41	-3188.7258	6655.0539	0.0015	0.9997
K2PG	37	-3204.3261	6659.1714	0.0002	0.9999
K2PI	37	-3205.2035	6660.9262	0.0001	0.9999
K2PIG	38	-3202.0499	6661.3898	0.0001	1.0000
F81IG	40	-3234.8459	6740.5233	0.0000	1.0000
F81I	39	-3238.5020	6741.0648	0.0000	1.0000
F81G	39	-3240.3767	6744.8142	0.0000	1.0000
JC69I	36	-3256.9942	6757.7368	0.0000	1.0000
JC69IG	37	-3253.8447	6758.2087	0.0000	1.0000
JC69G	36	-3259.1674	6762.0832	0.0000	1.0000
SYM	40	-3280.5842	6832.0000	0.0000	1.0000
GTR	43	-3271.5448	6834.2336	0.0000	1.0000
HKY	39	-3294.3576	6852.7760	0.0000	1.0000
K2P	36	-3306.8744	6857.4973	0.0000	1.0000
F81	38	-3341.3485	6939.9871	0.0000	1.0000
JC69	35	-3356.6248	6950.2272	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/chr3_17802.phylip = 1 - 872;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_17802.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/chr3_17802.phylip = 1 - 872;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_17802.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 (SYMG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_17802.phylip = 1 - 872;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr3_17802.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=Fixed(Equal);
END;


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End of Output

