
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:33 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/chr5_11541.phylip" (19 taxa, 646 characters)

Minimum AIC  model: HKYG
Minimum AICc model: HKYG
Minimum BIC  model: HKYG


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
HKYG	40	-1389.8269	2865.0753	0.7931	0.7931
GTRG	44	-1386.8196	2868.2282	0.1639	0.9571
HKYI	40	-1393.6231	2872.6676	0.0178	0.9749
HKYIG	41	-1392.5921	2872.8862	0.0160	0.9908
GTRIG	45	-1389.3216	2875.5432	0.0042	0.9951
GTRI	44	-1390.5058	2875.6006	0.0041	0.9992
K2PI	37	-1401.0123	2880.6496	0.0003	0.9995
K2PG	37	-1401.2705	2881.1659	0.0003	0.9998
K2PIG	38	-1400.3544	2881.5918	0.0002	1.0000
SYMI	41	-1399.4451	2886.5921	0.0000	1.0000
SYMG	41	-1399.5911	2886.8841	0.0000	1.0000
SYMIG	42	-1398.7488	2887.4876	0.0000	1.0000
HKY	39	-1404.2217	2891.5919	0.0000	1.0000
GTR	43	-1400.9213	2894.1282	0.0000	1.0000
F81G	39	-1411.3756	2905.8997	0.0000	1.0000
K2P	36	-1415.4116	2907.1975	0.0000	1.0000
SYM	40	-1413.2513	2911.9242	0.0000	1.0000
F81I	39	-1416.2002	2915.5489	0.0000	1.0000
F81IG	40	-1415.3245	2916.0704	0.0000	1.0000
JC69I	36	-1421.4746	2919.3235	0.0000	1.0000
JC69G	36	-1421.5993	2919.5730	0.0000	1.0000
JC69IG	37	-1420.8592	2920.3434	0.0000	1.0000
F81	38	-1424.8261	2930.5352	0.0000	1.0000
JC69	35	-1435.0501	2944.2313	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-1389.8269	2859.6538	0.6957	0.6957
GTRG	44	-1386.8196	2861.6391	0.2578	0.9535
HKYIG	41	-1392.5921	2867.1842	0.0161	0.9696
HKYI	40	-1393.6231	2867.2461	0.0156	0.9852
GTRIG	45	-1389.3216	2868.6432	0.0078	0.9930
GTRI	44	-1390.5058	2869.0116	0.0065	0.9995
K2PI	37	-1401.0123	2876.0246	0.0002	0.9997
K2PG	37	-1401.2705	2876.5409	0.0001	0.9998
K2PIG	38	-1400.3544	2876.7088	0.0001	1.0000
SYMI	41	-1399.4451	2880.8901	0.0000	1.0000
SYMG	41	-1399.5911	2881.1821	0.0000	1.0000
SYMIG	42	-1398.7488	2881.4975	0.0000	1.0000
HKY	39	-1404.2217	2886.4434	0.0000	1.0000
GTR	43	-1400.9213	2887.8425	0.0000	1.0000
F81G	39	-1411.3756	2900.7512	0.0000	1.0000
K2P	36	-1415.4116	2902.8231	0.0000	1.0000
SYM	40	-1413.2513	2906.5027	0.0000	1.0000
F81I	39	-1416.2002	2910.4004	0.0000	1.0000
F81IG	40	-1415.3245	2910.6489	0.0000	1.0000
JC69I	36	-1421.4746	2914.9492	0.0000	1.0000
JC69G	36	-1421.5993	2915.1987	0.0000	1.0000
JC69IG	37	-1420.8592	2915.7184	0.0000	1.0000
F81	38	-1424.8261	2925.6522	0.0000	1.0000
JC69	35	-1435.0501	2940.1002	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-1389.8269	3038.4858	0.6915	0.6915
K2PI	37	-1401.0123	3041.4441	0.1575	0.8490
K2PG	37	-1401.2705	3041.9605	0.1217	0.9707
HKYI	40	-1393.6231	3046.0781	0.0155	0.9863
K2PIG	38	-1400.3544	3046.5992	0.0120	0.9982
HKYIG	41	-1392.5921	3050.4870	0.0017	0.9999
GTRG	44	-1386.8196	3058.3543	0.0000	1.0000
HKY	39	-1404.2217	3060.8046	0.0000	1.0000
K2P	36	-1415.4116	3063.7719	0.0000	1.0000
SYMI	41	-1399.4451	3064.1929	0.0000	1.0000
SYMG	41	-1399.5911	3064.4849	0.0000	1.0000
GTRI	44	-1390.5058	3065.7267	0.0000	1.0000
SYMIG	42	-1398.7488	3069.2711	0.0000	1.0000
GTRIG	45	-1389.3216	3069.8292	0.0000	1.0000
F81G	39	-1411.3756	3075.1124	0.0000	1.0000
JC69I	36	-1421.4746	3075.8979	0.0000	1.0000
JC69G	36	-1421.5993	3076.1474	0.0000	1.0000
GTR	43	-1400.9213	3080.0869	0.0000	1.0000
JC69IG	37	-1420.8592	3081.1380	0.0000	1.0000
F81I	39	-1416.2002	3084.7616	0.0000	1.0000
SYM	40	-1413.2513	3085.3347	0.0000	1.0000
F81IG	40	-1415.3245	3089.4809	0.0000	1.0000
F81	38	-1424.8261	3095.5426	0.0000	1.0000
JC69	35	-1435.0501	3096.5782	0.0000	1.0000



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

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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_11541.phylip = 1 - 646;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_11541.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 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);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_11541.phylip = 1 - 646;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_11541.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 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);
END;


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

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_11541.phylip = 1 - 646;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr5_11541.phylip;
 Set partition = Dummy;
 Lset applyto=(1) nst=2 rates=gamma;
 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);
END;


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End of Output

