
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
13:09 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/chrUn_random_3551.phylip" (19 taxa, 438 characters)

Minimum AIC  model: GTRG
Minimum AICc model: GTRG
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
GTRG	44	-1519.2991	3136.6746	0.6888	0.6888
GTRIG	45	-1519.2996	3139.1605	0.1988	0.8876
GTRI	44	-1521.1234	3140.3231	0.1111	0.9987
HKYG	40	-1530.9474	3150.1568	0.0008	0.9996
HKYIG	41	-1530.9471	3152.5912	0.0002	0.9998
HKYI	40	-1532.4604	3153.1828	0.0002	1.0000
SYMG	41	-1533.8980	3158.4929	0.0000	1.0000
GTR	43	-1532.1592	3159.9224	0.0000	1.0000
SYMIG	42	-1533.9035	3160.9513	0.0000	1.0000
SYMI	41	-1535.3025	3161.3020	0.0000	1.0000
K2PG	37	-1540.4169	3161.8638	0.0000	1.0000
K2PIG	38	-1540.4165	3164.2617	0.0000	1.0000
K2PI	37	-1541.8250	3164.6800	0.0000	1.0000
HKY	39	-1542.4444	3170.7279	0.0000	1.0000
SYM	40	-1545.1222	3178.5064	0.0000	1.0000
K2P	36	-1551.4916	3181.6266	0.0000	1.0000
F81G	39	-1552.6381	3191.1155	0.0000	1.0000
F81IG	40	-1552.6410	3193.5440	0.0000	1.0000
F81I	39	-1554.1188	3194.0769	0.0000	1.0000
JC69G	36	-1560.8259	3200.2951	0.0000	1.0000
JC69IG	37	-1560.8269	3202.6839	0.0000	1.0000
JC69I	36	-1562.1747	3202.9929	0.0000	1.0000
F81	38	-1563.5241	3210.4768	0.0000	1.0000
JC69	35	-1571.6647	3219.5980	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
GTRG	44	-1519.2991	3126.5982	0.6537	0.6537
GTRIG	45	-1519.2996	3128.5992	0.2404	0.8940
GTRI	44	-1521.1234	3130.2467	0.1055	0.9995
HKYG	40	-1530.9474	3141.8949	0.0003	0.9998
HKYIG	41	-1530.9471	3143.8942	0.0001	0.9999
HKYI	40	-1532.4604	3144.9208	0.0001	1.0000
SYMG	41	-1533.8980	3149.7959	0.0000	1.0000
GTR	43	-1532.1592	3150.3184	0.0000	1.0000
SYMIG	42	-1533.9035	3151.8070	0.0000	1.0000
SYMI	41	-1535.3025	3152.6050	0.0000	1.0000
K2PG	37	-1540.4169	3154.8338	0.0000	1.0000
K2PIG	38	-1540.4165	3156.8331	0.0000	1.0000
K2PI	37	-1541.8250	3157.6500	0.0000	1.0000
HKY	39	-1542.4444	3162.8887	0.0000	1.0000
SYM	40	-1545.1222	3170.2444	0.0000	1.0000
K2P	36	-1551.4916	3174.9832	0.0000	1.0000
F81G	39	-1552.6381	3183.2763	0.0000	1.0000
F81IG	40	-1552.6410	3185.2821	0.0000	1.0000
F81I	39	-1554.1188	3186.2377	0.0000	1.0000
JC69G	36	-1560.8259	3193.6517	0.0000	1.0000
JC69IG	37	-1560.8269	3195.6539	0.0000	1.0000
JC69I	36	-1562.1747	3196.3495	0.0000	1.0000
F81	38	-1563.5241	3203.0482	0.0000	1.0000
JC69	35	-1571.6647	3213.3293	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-1530.9474	3305.1836	0.3439	0.3439
K2PG	37	-1540.4169	3305.8759	0.2433	0.5872
GTRG	44	-1519.2991	3306.2159	0.2053	0.7925
HKYI	40	-1532.4604	3308.2096	0.0757	0.8682
K2PI	37	-1541.8250	3308.6921	0.0595	0.9277
GTRI	44	-1521.1234	3309.8644	0.0331	0.9609
HKYIG	41	-1530.9471	3311.2652	0.0164	0.9773
K2PIG	38	-1540.4165	3311.9574	0.0116	0.9889
GTRIG	45	-1519.2996	3312.2991	0.0098	0.9987
SYMG	41	-1533.8980	3317.1669	0.0009	0.9996
SYMI	41	-1535.3025	3319.9760	0.0002	0.9998
K2P	36	-1551.4916	3321.9430	0.0001	0.9999
HKY	39	-1542.4444	3322.0953	0.0001	0.9999
SYMIG	42	-1533.9035	3323.2602	0.0000	1.0000
GTR	43	-1532.1592	3325.8538	0.0000	1.0000
SYM	40	-1545.1222	3333.5332	0.0000	1.0000
JC69G	36	-1560.8259	3340.6116	0.0000	1.0000
F81G	39	-1552.6381	3342.4828	0.0000	1.0000
JC69I	36	-1562.1747	3343.3094	0.0000	1.0000
F81I	39	-1554.1188	3345.4442	0.0000	1.0000
JC69IG	37	-1560.8269	3346.6960	0.0000	1.0000
F81IG	40	-1552.6410	3348.5708	0.0000	1.0000
JC69	35	-1571.6647	3356.2070	0.0000	1.0000
F81	38	-1563.5241	3358.1726	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/chrUn_random_3551.phylip = 1 - 438;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrUn_random_3551.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/chrUn_random_3551.phylip = 1 - 438;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrUn_random_3551.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 (HKYG)]

BEGIN MRBAYES;
 Charset /Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrUn_random_3551.phylip = 1 - 438;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrUn_random_3551.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

