
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:06 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/chr10_5634.phylip" (19 taxa, 403 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	-1070.6836	2240.4287	0.4353	0.4353
GTRI	44	-1070.7175	2240.4964	0.4208	0.8561
GTRIG	45	-1070.6792	2242.9550	0.1231	0.9792
GTR	43	-1074.9829	2246.5062	0.0208	1.0000
HKYG	40	-1089.7505	2268.5618	0.0000	1.0000
HKYI	40	-1089.8106	2268.6819	0.0000	1.0000
HKYIG	41	-1089.7539	2271.0480	0.0000	1.0000
HKY	39	-1094.2611	2275.1173	0.0000	1.0000
SYMI	41	-1105.0241	2301.5883	0.0000	1.0000
SYMG	41	-1105.2256	2301.9913	0.0000	1.0000
SYMIG	42	-1105.0291	2304.0915	0.0000	1.0000
SYM	40	-1109.2300	2307.5207	0.0000	1.0000
F81G	39	-1111.0685	2308.7320	0.0000	1.0000
F81I	39	-1111.0894	2308.7739	0.0000	1.0000
F81IG	40	-1111.0746	2311.2100	0.0000	1.0000
K2PI	37	-1116.4390	2314.5822	0.0000	1.0000
K2PG	37	-1116.5220	2314.7481	0.0000	1.0000
F81	38	-1115.7753	2315.6936	0.0000	1.0000
K2PIG	38	-1116.5304	2317.2037	0.0000	1.0000
K2P	36	-1121.8017	2322.8822	0.0000	1.0000
JC69I	36	-1134.1039	2347.4865	0.0000	1.0000
JC69G	36	-1134.1773	2347.6334	0.0000	1.0000
JC69IG	37	-1134.1862	2350.0765	0.0000	1.0000
JC69	35	-1139.1876	2355.2417	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-1070.6836	2229.3672	0.4214	0.4214
GTRI	44	-1070.7175	2229.4349	0.4074	0.8287
GTRIG	45	-1070.6792	2231.3584	0.1557	0.9844
GTR	43	-1074.9829	2235.9658	0.0156	1.0000
HKYG	40	-1089.7505	2259.5010	0.0000	1.0000
HKYI	40	-1089.8106	2259.6212	0.0000	1.0000
HKYIG	41	-1089.7539	2261.5078	0.0000	1.0000
HKY	39	-1094.2611	2266.5222	0.0000	1.0000
SYMI	41	-1105.0241	2292.0481	0.0000	1.0000
SYMG	41	-1105.2256	2292.4512	0.0000	1.0000
SYMIG	42	-1105.0291	2294.0581	0.0000	1.0000
SYM	40	-1109.2300	2298.4599	0.0000	1.0000
F81G	39	-1111.0685	2300.1370	0.0000	1.0000
F81I	39	-1111.0894	2300.1789	0.0000	1.0000
F81IG	40	-1111.0746	2302.1492	0.0000	1.0000
K2PI	37	-1116.4390	2306.8781	0.0000	1.0000
K2PG	37	-1116.5220	2307.0440	0.0000	1.0000
F81	38	-1115.7753	2307.5507	0.0000	1.0000
K2PIG	38	-1116.5304	2309.0608	0.0000	1.0000
K2P	36	-1121.8017	2315.6035	0.0000	1.0000
JC69I	36	-1134.1039	2340.2078	0.0000	1.0000
JC69G	36	-1134.1773	2340.3547	0.0000	1.0000
JC69IG	37	-1134.1862	2342.3724	0.0000	1.0000
JC69	35	-1139.1876	2348.3752	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-1070.6836	2405.3204	0.4365	0.4365
GTRI	44	-1070.7175	2405.3881	0.4219	0.8584
GTR	43	-1074.9829	2407.9201	0.1190	0.9773
GTRIG	45	-1070.6792	2411.3105	0.0218	0.9992
HKYG	40	-1089.7505	2419.4585	0.0004	0.9995
HKYI	40	-1089.8106	2419.5786	0.0003	0.9999
HKY	39	-1094.2611	2422.4807	0.0001	1.0000
HKYIG	41	-1089.7539	2425.4642	0.0000	1.0000
K2PI	37	-1116.4390	2454.8387	0.0000	1.0000
K2PG	37	-1116.5220	2455.0047	0.0000	1.0000
SYMI	41	-1105.0241	2456.0045	0.0000	1.0000
F81G	39	-1111.0685	2456.0955	0.0000	1.0000
F81I	39	-1111.0894	2456.1374	0.0000	1.0000
SYMG	41	-1105.2256	2456.4076	0.0000	1.0000
SYM	40	-1109.2300	2458.4174	0.0000	1.0000
F81	38	-1115.7753	2459.5103	0.0000	1.0000
K2P	36	-1121.8017	2459.5652	0.0000	1.0000
K2PIG	38	-1116.5304	2461.0204	0.0000	1.0000
SYMIG	42	-1105.0291	2462.0135	0.0000	1.0000
F81IG	40	-1111.0746	2462.1066	0.0000	1.0000
JC69I	36	-1134.1039	2484.1696	0.0000	1.0000
JC69G	36	-1134.1773	2484.3164	0.0000	1.0000
JC69	35	-1139.1876	2488.3380	0.0000	1.0000
JC69IG	37	-1134.1862	2490.3331	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/chr10_5634.phylip = 1 - 403;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr10_5634.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/chr10_5634.phylip = 1 - 403;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr10_5634.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/chr10_5634.phylip = 1 - 403;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr10_5634.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

