
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:51 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/chr7_10377.phylip" (19 taxa, 317 characters)

Minimum AIC  model: GTRIG
Minimum AICc model: GTRIG
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
GTRIG	45	-957.2436	2019.7640	0.3806	0.3806
GTRI	44	-959.1601	2020.8790	0.2180	0.5986
HKYI	40	-964.9013	2021.6867	0.1455	0.7442
GTRG	44	-959.6700	2021.8989	0.1309	0.8751
HKYG	40	-965.4308	2022.7456	0.0857	0.9608
HKYIG	41	-964.9062	2024.3361	0.0387	0.9995
SYMI	41	-970.4262	2035.3760	0.0002	0.9996
SYMG	41	-970.7136	2035.9509	0.0001	0.9998
K2PI	37	-976.5715	2037.2218	0.0001	0.9998
K2PG	37	-976.7848	2037.6485	0.0000	0.9999
SYMIG	42	-970.4271	2038.0366	0.0000	0.9999
GTR	43	-969.0879	2038.0367	0.0000	0.9999
HKY	39	-974.6016	2038.4668	0.0000	1.0000
K2PIG	38	-976.5679	2039.7976	0.0000	1.0000
SYM	40	-979.4888	2050.8617	0.0000	1.0000
K2P	36	-985.8883	2053.2909	0.0000	1.0000
F81I	39	-1003.3088	2095.8811	0.0000	1.0000
F81G	39	-1003.6639	2096.5914	0.0000	1.0000
F81IG	40	-1003.3102	2098.5045	0.0000	1.0000
JC69I	36	-1012.2628	2106.0399	0.0000	1.0000
JC69IG	37	-1012.2621	2108.6031	0.0000	1.0000
JC69G	36	-1013.7232	2108.9607	0.0000	1.0000
F81	38	-1012.8200	2112.3019	0.0000	1.0000
JC69	35	-1020.9197	2120.8073	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRIG	45	-957.2436	2004.4873	0.5626	0.5626
GTRI	44	-959.1601	2006.3202	0.2250	0.7876
GTRG	44	-959.6700	2007.3401	0.1351	0.9227
HKYI	40	-964.9013	2009.8027	0.0394	0.9622
HKYG	40	-965.4308	2010.8616	0.0232	0.9854
HKYIG	41	-964.9062	2011.8124	0.0144	0.9998
SYMI	41	-970.4262	2022.8523	0.0001	0.9999
SYMG	41	-970.7136	2023.4273	0.0000	0.9999
GTR	43	-969.0879	2024.1759	0.0000	1.0000
SYMIG	42	-970.4271	2024.8541	0.0000	1.0000
K2PI	37	-976.5715	2027.1430	0.0000	1.0000
HKY	39	-974.6016	2027.2032	0.0000	1.0000
K2PG	37	-976.7848	2027.5697	0.0000	1.0000
K2PIG	38	-976.5679	2029.1358	0.0000	1.0000
SYM	40	-979.4888	2038.9776	0.0000	1.0000
K2P	36	-985.8883	2043.7767	0.0000	1.0000
F81I	39	-1003.3088	2084.6176	0.0000	1.0000
F81G	39	-1003.6639	2085.3278	0.0000	1.0000
F81IG	40	-1003.3102	2086.6204	0.0000	1.0000
JC69I	36	-1012.2628	2096.5256	0.0000	1.0000
JC69IG	37	-1012.2621	2098.5243	0.0000	1.0000
JC69G	36	-1013.7232	2099.4464	0.0000	1.0000
F81	38	-1012.8200	2101.6400	0.0000	1.0000
JC69	35	-1020.9197	2111.8393	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYI	40	-964.9013	2160.1587	0.5739	0.5739
HKYG	40	-965.4308	2161.2176	0.3380	0.9119
HKYIG	41	-964.9062	2165.9274	0.0321	0.9440
K2PI	37	-976.5715	2166.2223	0.0277	0.9716
K2PG	37	-976.7848	2166.6490	0.0224	0.9940
GTRI	44	-959.1601	2171.7119	0.0018	0.9958
K2PIG	38	-976.5679	2171.9740	0.0016	0.9973
GTRG	44	-959.6700	2172.7318	0.0011	0.9984
GTRIG	45	-957.2436	2173.6378	0.0007	0.9991
HKY	39	-974.6016	2173.8004	0.0006	0.9997
SYMI	41	-970.4262	2176.9673	0.0001	0.9999
SYMG	41	-970.7136	2177.5422	0.0001	0.9999
K2P	36	-985.8883	2179.0971	0.0000	1.0000
SYMIG	42	-970.4271	2182.7280	0.0000	1.0000
GTR	43	-969.0879	2185.8087	0.0000	1.0000
SYM	40	-979.4888	2189.3337	0.0000	1.0000
F81I	39	-1003.3088	2231.2148	0.0000	1.0000
JC69I	36	-1012.2628	2231.8461	0.0000	1.0000
F81G	39	-1003.6639	2231.9250	0.0000	1.0000
JC69G	36	-1013.7232	2234.7669	0.0000	1.0000
F81IG	40	-1003.3102	2236.9765	0.0000	1.0000
JC69IG	37	-1012.2621	2237.6036	0.0000	1.0000
JC69	35	-1020.9197	2243.4009	0.0000	1.0000
F81	38	-1012.8200	2244.4783	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/chr7_10377.phylip = 1 - 317;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr7_10377.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/chr7_10377.phylip = 1 - 317;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr7_10377.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 (HKYI)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr7_10377.phylip = 1 - 317;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr7_10377.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;


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End of Output

