
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
13:31 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/chrZ_8278.phylip" (19 taxa, 1189 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	-3190.8120	6473.0856	0.9025	0.9025
GTRIG	45	-3191.9605	6477.5430	0.0972	0.9997
GTRI	44	-3198.6768	6488.8151	0.0003	1.0000
HKYG	40	-3208.6239	6500.1049	0.0000	1.0000
HKYIG	41	-3210.0330	6505.0687	0.0000	1.0000
HKYI	40	-3217.0083	6516.8737	0.0000	1.0000
SYMIG	42	-3242.6752	6572.5021	0.0000	1.0000
SYMG	41	-3245.2254	6575.4534	0.0000	1.0000
SYMI	41	-3247.1880	6579.3787	0.0000	1.0000
K2PG	37	-3261.1098	6598.6626	0.0000	1.0000
K2PIG	38	-3260.4781	6599.5337	0.0000	1.0000
F81IG	40	-3263.9951	6610.8474	0.0000	1.0000
F81G	39	-3267.3288	6615.3729	0.0000	1.0000
K2PI	37	-3270.2085	6616.8602	0.0000	1.0000
F81I	39	-3269.3879	6619.4912	0.0000	1.0000
GTR	43	-3270.9586	6631.2219	0.0000	1.0000
HKY	39	-3290.2675	6661.2505	0.0000	1.0000
JC69IG	37	-3313.9365	6704.3161	0.0000	1.0000
JC69G	36	-3321.2696	6716.8518	0.0000	1.0000
JC69I	36	-3323.1242	6720.5609	0.0000	1.0000
SYM	40	-3320.7355	6724.3282	0.0000	1.0000
K2P	36	-3337.1696	6748.6517	0.0000	1.0000
F81	38	-3342.0820	6762.7414	0.0000	1.0000
JC69	35	-3397.1785	6866.5427	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-3190.8120	6469.6240	0.8952	0.8952
GTRIG	45	-3191.9605	6473.9210	0.1044	0.9997
GTRI	44	-3198.6768	6485.3536	0.0003	1.0000
HKYG	40	-3208.6239	6497.2478	0.0000	1.0000
HKYIG	41	-3210.0330	6502.0660	0.0000	1.0000
HKYI	40	-3217.0083	6514.0166	0.0000	1.0000
SYMIG	42	-3242.6752	6569.3503	0.0000	1.0000
SYMG	41	-3245.2254	6572.4508	0.0000	1.0000
SYMI	41	-3247.1880	6576.3760	0.0000	1.0000
K2PG	37	-3261.1098	6596.2195	0.0000	1.0000
K2PIG	38	-3260.4781	6596.9563	0.0000	1.0000
F81IG	40	-3263.9951	6607.9902	0.0000	1.0000
F81G	39	-3267.3288	6612.6575	0.0000	1.0000
K2PI	37	-3270.2085	6614.4171	0.0000	1.0000
F81I	39	-3269.3879	6616.7758	0.0000	1.0000
GTR	43	-3270.9586	6627.9171	0.0000	1.0000
HKY	39	-3290.2675	6658.5351	0.0000	1.0000
JC69IG	37	-3313.9365	6701.8730	0.0000	1.0000
JC69G	36	-3321.2696	6714.5393	0.0000	1.0000
JC69I	36	-3323.1242	6718.2484	0.0000	1.0000
SYM	40	-3320.7355	6721.4711	0.0000	1.0000
K2P	36	-3337.1696	6746.3392	0.0000	1.0000
F81	38	-3342.0820	6760.1640	0.0000	1.0000
JC69	35	-3397.1785	6864.3571	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
GTRG	44	-3190.8120	6693.1822	0.9655	0.9655
HKYG	40	-3208.6239	6700.4825	0.0251	0.9906
GTRIG	45	-3191.9605	6702.5601	0.0089	0.9994
GTRI	44	-3198.6768	6708.9118	0.0004	0.9998
HKYIG	41	-3210.0330	6710.3816	0.0002	1.0000
HKYI	40	-3217.0083	6717.2513	0.0000	1.0000
SYMG	41	-3245.2254	6780.7664	0.0000	1.0000
SYMIG	42	-3242.6752	6782.7468	0.0000	1.0000
K2PG	37	-3261.1098	6784.2116	0.0000	1.0000
SYMI	41	-3247.1880	6784.6916	0.0000	1.0000
K2PIG	38	-3260.4781	6790.0292	0.0000	1.0000
K2PI	37	-3270.2085	6802.4092	0.0000	1.0000
F81G	39	-3267.3288	6810.8114	0.0000	1.0000
F81IG	40	-3263.9951	6811.2250	0.0000	1.0000
F81I	39	-3269.3879	6814.9296	0.0000	1.0000
GTR	43	-3270.9586	6846.3945	0.0000	1.0000
HKY	39	-3290.2675	6856.6889	0.0000	1.0000
JC69IG	37	-3313.9365	6889.8651	0.0000	1.0000
JC69G	36	-3321.2696	6897.4505	0.0000	1.0000
JC69I	36	-3323.1242	6901.1596	0.0000	1.0000
SYM	40	-3320.7355	6924.7058	0.0000	1.0000
K2P	36	-3337.1696	6929.2504	0.0000	1.0000
F81	38	-3342.0820	6953.2370	0.0000	1.0000
JC69	35	-3397.1785	7042.1874	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/chrZ_8278.phylip = 1 - 1189;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_8278.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/chrZ_8278.phylip = 1 - 1189;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_8278.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/chrZ_8278.phylip = 1 - 1189;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_8278.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

