
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:31 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/chr22_866.phylip" (19 taxa, 329 characters)

Minimum AIC  model: HKYIG
Minimum AICc model: K2PIG
Minimum BIC  model: K2PG


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
K2PIG	38	-1242.9733	2572.1672	0.2828	0.2828
HKYIG	41	-1239.2858	2572.5716	0.2310	0.5138
HKYG	40	-1240.7332	2572.8554	0.2005	0.7143
K2PG	37	-1244.5976	2572.8584	0.2002	0.9145
GTRG	44	-1237.2186	2576.3808	0.0344	0.9489
SYMG	41	-1241.5376	2577.0752	0.0243	0.9732
GTRIG	45	-1236.7511	2578.1312	0.0143	0.9875
SYMIG	42	-1241.2329	2579.0952	0.0089	0.9963
K2PI	37	-1249.3747	2582.4127	0.0017	0.9980
HKYI	40	-1245.6368	2582.6625	0.0015	0.9995
GTRI	44	-1241.6762	2585.2960	0.0004	0.9999
SYMI	41	-1247.2345	2588.4690	0.0001	1.0000
F81G	39	-1275.2806	2639.3571	0.0000	1.0000
F81IG	40	-1274.8462	2641.0812	0.0000	1.0000
JC69G	36	-1280.4861	2642.0956	0.0000	1.0000
JC69IG	37	-1280.0236	2643.7104	0.0000	1.0000
F81I	39	-1279.6804	2648.1566	0.0000	1.0000
JC69I	36	-1284.8884	2650.9002	0.0000	1.0000
HKY	39	-1299.1908	2687.1775	0.0000	1.0000
K2P	36	-1304.5295	2690.1823	0.0000	1.0000
GTR	43	-1295.4587	2690.1947	0.0000	1.0000
SYM	40	-1300.0540	2691.4968	0.0000	1.0000
F81	38	-1333.9936	2754.2079	0.0000	1.0000
JC69	35	-1338.4055	2755.4116	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYIG	41	-1239.2858	2560.5716	0.3120	0.3120
HKYG	40	-1240.7332	2561.4665	0.1994	0.5114
K2PIG	38	-1242.9733	2561.9465	0.1569	0.6683
GTRG	44	-1237.2186	2562.4371	0.1227	0.7910
K2PG	37	-1244.5976	2563.1951	0.0840	0.8750
GTRIG	45	-1236.7511	2563.5022	0.0721	0.9471
SYMG	41	-1241.5376	2565.0752	0.0328	0.9799
SYMIG	42	-1241.2329	2566.4658	0.0164	0.9963
HKYI	40	-1245.6368	2571.2736	0.0015	0.9978
GTRI	44	-1241.6762	2571.3523	0.0014	0.9992
K2PI	37	-1249.3747	2572.7495	0.0007	0.9999
SYMI	41	-1247.2345	2576.4690	0.0001	1.0000
F81G	39	-1275.2806	2628.5613	0.0000	1.0000
F81IG	40	-1274.8462	2629.6923	0.0000	1.0000
JC69G	36	-1280.4861	2632.9723	0.0000	1.0000
JC69IG	37	-1280.0236	2634.0471	0.0000	1.0000
F81I	39	-1279.6804	2637.3608	0.0000	1.0000
JC69I	36	-1284.8884	2641.7769	0.0000	1.0000
HKY	39	-1299.1908	2676.3817	0.0000	1.0000
GTR	43	-1295.4587	2676.9175	0.0000	1.0000
SYM	40	-1300.0540	2680.1079	0.0000	1.0000
K2P	36	-1304.5295	2681.0591	0.0000	1.0000
F81	38	-1333.9936	2743.9872	0.0000	1.0000
JC69	35	-1338.4055	2746.8110	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
K2PG	37	-1244.5976	2703.6493	0.7702	0.7702
K2PIG	38	-1242.9733	2706.1967	0.2155	0.9857
K2PI	37	-1249.3747	2713.2036	0.0065	0.9922
HKYG	40	-1240.7332	2713.3088	0.0062	0.9983
HKYIG	41	-1239.2858	2716.2099	0.0014	0.9998
SYMG	41	-1241.5376	2720.7136	0.0002	0.9999
HKYI	40	-1245.6368	2723.1159	0.0000	1.0000
SYMIG	42	-1241.2329	2725.9003	0.0000	1.0000
GTRG	44	-1237.2186	2729.4636	0.0000	1.0000
SYMI	41	-1247.2345	2732.1073	0.0000	1.0000
GTRIG	45	-1236.7511	2734.3248	0.0000	1.0000
GTRI	44	-1241.6762	2738.3788	0.0000	1.0000
JC69G	36	-1280.4861	2769.6304	0.0000	1.0000
JC69IG	37	-1280.0236	2774.5013	0.0000	1.0000
F81G	39	-1275.2806	2776.6075	0.0000	1.0000
JC69I	36	-1284.8884	2778.4350	0.0000	1.0000
F81IG	40	-1274.8462	2781.5347	0.0000	1.0000
F81I	39	-1279.6804	2785.4070	0.0000	1.0000
K2P	36	-1304.5295	2817.7171	0.0000	1.0000
HKY	39	-1299.1908	2824.4279	0.0000	1.0000
SYM	40	-1300.0540	2831.9502	0.0000	1.0000
GTR	43	-1295.4587	2840.1479	0.0000	1.0000
JC69	35	-1338.4055	2879.6730	0.0000	1.0000
F81	38	-1333.9936	2888.2374	0.0000	1.0000



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

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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr22_866.phylip = 1 - 329;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr22_866.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=invgamma;
 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) pinvarpr=Uniform(0.0,1.0);
END;


[Mrbayes block for the best AICc model (K2PIG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr22_866.phylip = 1 - 329;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr22_866.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=invgamma;
 Prset applyto=(1) statefreqpr=Fixed(Equal) tratiopr=Beta(1.0,1.0) shapepr=Uniform(0.1,50.0) pinvarpr=Uniform(0.0,1.0);
END;


[Mrbayes block for the best BIC model (K2PG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr22_866.phylip = 1 - 329;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr22_866.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 Prset applyto=(1) statefreqpr=Fixed(Equal) tratiopr=Beta(1.0,1.0) shapepr=Uniform(0.1,50.0);
END;


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End of Output

