
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
12:24 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/chr4_17860.phylip" (19 taxa, 445 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	-1568.1170	3224.3528	0.8053	0.8053
HKYIG	41	-1568.8118	3228.1695	0.1194	0.9247
GTRG	44	-1566.4138	3230.7276	0.0332	0.9580
HKYI	40	-1571.5819	3231.2825	0.0252	0.9831
GTRIG	45	-1565.9707	3232.3174	0.0150	0.9982
GTRI	44	-1569.3108	3236.5216	0.0018	1.0000
K2PG	37	-1584.1755	3249.2602	0.0000	1.0000
SYMG	41	-1579.4933	3249.5325	0.0000	1.0000
SYMIG	42	-1578.7992	3250.5834	0.0000	1.0000
K2PIG	38	-1584.5728	3252.4460	0.0000	1.0000
SYMI	41	-1585.8133	3262.1725	0.0000	1.0000
K2PI	37	-1591.3962	3263.7015	0.0000	1.0000
F81G	39	-1614.2747	3314.2530	0.0000	1.0000
F81IG	40	-1613.8104	3315.7397	0.0000	1.0000
F81I	39	-1617.1927	3320.0891	0.0000	1.0000
JC69G	36	-1628.0400	3334.6094	0.0000	1.0000
JC69IG	37	-1627.5827	3336.0744	0.0000	1.0000
GTR	43	-1621.5914	3338.6192	0.0000	1.0000
HKY	39	-1626.8300	3339.3636	0.0000	1.0000
JC69I	36	-1630.7721	3340.0737	0.0000	1.0000
SYM	40	-1633.3901	3354.8990	0.0000	1.0000
K2P	36	-1642.2549	3363.0392	0.0000	1.0000
F81	38	-1664.1818	3411.6642	0.0000	1.0000
JC69	35	-1676.8262	3429.8138	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-1568.1170	3216.2339	0.7253	0.7253
HKYIG	41	-1568.8118	3219.6236	0.1332	0.8585
GTRG	44	-1566.4138	3220.8276	0.0730	0.9315
GTRIG	45	-1565.9707	3221.9414	0.0418	0.9733
HKYI	40	-1571.5819	3223.1637	0.0227	0.9960
GTRI	44	-1569.3108	3226.6216	0.0040	1.0000
SYMG	41	-1579.4933	3240.9866	0.0000	1.0000
SYMIG	42	-1578.7992	3241.5983	0.0000	1.0000
K2PG	37	-1584.1755	3242.3511	0.0000	1.0000
K2PIG	38	-1584.5728	3245.1455	0.0000	1.0000
SYMI	41	-1585.8133	3253.6266	0.0000	1.0000
K2PI	37	-1591.3962	3256.7924	0.0000	1.0000
F81G	39	-1614.2747	3306.5493	0.0000	1.0000
F81IG	40	-1613.8104	3307.6209	0.0000	1.0000
F81I	39	-1617.1927	3312.3854	0.0000	1.0000
JC69G	36	-1628.0400	3328.0800	0.0000	1.0000
JC69IG	37	-1627.5827	3329.1653	0.0000	1.0000
GTR	43	-1621.5914	3329.1828	0.0000	1.0000
HKY	39	-1626.8300	3331.6599	0.0000	1.0000
JC69I	36	-1630.7721	3333.5442	0.0000	1.0000
SYM	40	-1633.3901	3346.7802	0.0000	1.0000
K2P	36	-1642.2549	3356.5097	0.0000	1.0000
F81	38	-1664.1818	3404.3637	0.0000	1.0000
JC69	35	-1676.8262	3423.6524	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-1568.1170	3380.1569	0.9470	0.9470
HKYI	40	-1571.5819	3387.0867	0.0296	0.9766
HKYIG	41	-1568.8118	3387.6447	0.0224	0.9990
K2PG	37	-1584.1755	3393.9798	0.0009	0.9999
K2PIG	38	-1584.5728	3400.8723	0.0000	1.0000
GTRG	44	-1566.4138	3401.1429	0.0000	1.0000
GTRIG	45	-1565.9707	3406.3548	0.0000	1.0000
GTRI	44	-1569.3108	3406.9368	0.0000	1.0000
K2PI	37	-1591.3962	3408.4212	0.0000	1.0000
SYMG	41	-1579.4933	3409.0077	0.0000	1.0000
SYMIG	42	-1578.7992	3413.7174	0.0000	1.0000
SYMI	41	-1585.8133	3421.6477	0.0000	1.0000
F81G	39	-1614.2747	3466.3742	0.0000	1.0000
F81IG	40	-1613.8104	3471.5438	0.0000	1.0000
F81I	39	-1617.1927	3472.2103	0.0000	1.0000
JC69G	36	-1628.0400	3475.6107	0.0000	1.0000
JC69IG	37	-1627.5827	3480.7940	0.0000	1.0000
JC69I	36	-1630.7721	3481.0749	0.0000	1.0000
HKY	39	-1626.8300	3491.4848	0.0000	1.0000
K2P	36	-1642.2549	3504.0404	0.0000	1.0000
GTR	43	-1621.5914	3505.4000	0.0000	1.0000
SYM	40	-1633.3901	3510.7032	0.0000	1.0000
F81	38	-1664.1818	3560.0905	0.0000	1.0000
JC69	35	-1676.8262	3567.0850	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/chr4_17860.phylip = 1 - 445;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr4_17860.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/chr4_17860.phylip = 1 - 445;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr4_17860.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/chr4_17860.phylip = 1 - 445;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr4_17860.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

