
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
13:13 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_10691.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	-1544.9889	3178.0967	0.5178	0.5178
HKYIG	41	-1544.1669	3178.8797	0.3501	0.8679
GTRG	44	-1542.2688	3182.4376	0.0591	0.9270
HKYI	40	-1547.6855	3183.4898	0.0349	0.9619
GTRIG	45	-1541.5757	3183.5274	0.0343	0.9962
GTRI	44	-1545.0122	3187.9245	0.0038	1.0000
K2PG	37	-1562.2309	3205.3709	0.0000	1.0000
K2PIG	38	-1561.5245	3206.3495	0.0000	1.0000
K2PI	37	-1564.5619	3210.0329	0.0000	1.0000
SYMG	41	-1560.2120	3210.9700	0.0000	1.0000
SYMIG	42	-1559.5089	3212.0028	0.0000	1.0000
SYMI	41	-1562.5611	3215.6681	0.0000	1.0000
F81G	39	-1577.2111	3240.1258	0.0000	1.0000
F81IG	40	-1576.7828	3241.6845	0.0000	1.0000
F81I	39	-1581.9555	3249.6147	0.0000	1.0000
JC69G	36	-1592.1818	3262.8931	0.0000	1.0000
JC69IG	37	-1591.7786	3264.4662	0.0000	1.0000
HKY	39	-1590.5428	3266.7893	0.0000	1.0000
JC69I	36	-1595.6669	3269.8632	0.0000	1.0000
GTR	43	-1587.2574	3269.9513	0.0000	1.0000
K2P	36	-1605.0523	3288.6340	0.0000	1.0000
SYM	40	-1602.9881	3294.0951	0.0000	1.0000
F81	38	-1618.4608	3320.2221	0.0000	1.0000
JC69	35	-1632.9400	3342.0414	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-1544.9889	3169.9778	0.4158	0.4158
HKYIG	41	-1544.1669	3170.3338	0.3480	0.7638
GTRG	44	-1542.2688	3172.5376	0.1156	0.8795
GTRIG	45	-1541.5757	3173.1515	0.0851	0.9645
HKYI	40	-1547.6855	3175.3710	0.0280	0.9926
GTRI	44	-1545.0122	3178.0245	0.0074	1.0000
K2PG	37	-1562.2309	3198.4618	0.0000	1.0000
K2PIG	38	-1561.5245	3199.0490	0.0000	1.0000
SYMG	41	-1560.2120	3202.4241	0.0000	1.0000
SYMIG	42	-1559.5089	3203.0177	0.0000	1.0000
K2PI	37	-1564.5619	3203.1238	0.0000	1.0000
SYMI	41	-1562.5611	3207.1222	0.0000	1.0000
F81G	39	-1577.2111	3232.4221	0.0000	1.0000
F81IG	40	-1576.7828	3233.5657	0.0000	1.0000
F81I	39	-1581.9555	3241.9110	0.0000	1.0000
JC69G	36	-1592.1818	3256.3636	0.0000	1.0000
JC69IG	37	-1591.7786	3257.5571	0.0000	1.0000
HKY	39	-1590.5428	3259.0856	0.0000	1.0000
GTR	43	-1587.2574	3260.5149	0.0000	1.0000
JC69I	36	-1595.6669	3263.3338	0.0000	1.0000
K2P	36	-1605.0523	3282.1046	0.0000	1.0000
SYM	40	-1602.9881	3285.9763	0.0000	1.0000
F81	38	-1618.4608	3312.9216	0.0000	1.0000
JC69	35	-1632.9400	3335.8800	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-1544.9889	3333.9008	0.8505	0.8505
HKYIG	41	-1544.1669	3338.3548	0.0917	0.9423
HKYI	40	-1547.6855	3339.2939	0.0574	0.9996
K2PG	37	-1562.2309	3350.0905	0.0003	0.9999
GTRG	44	-1542.2688	3352.8529	0.0001	0.9999
K2PI	37	-1564.5619	3354.7525	0.0000	1.0000
K2PIG	38	-1561.5245	3354.7758	0.0000	1.0000
GTRIG	45	-1541.5757	3357.5648	0.0000	1.0000
GTRI	44	-1545.0122	3358.3397	0.0000	1.0000
SYMG	41	-1560.2120	3370.4451	0.0000	1.0000
SYMIG	42	-1559.5089	3375.1369	0.0000	1.0000
SYMI	41	-1562.5611	3375.1432	0.0000	1.0000
F81G	39	-1577.2111	3392.2470	0.0000	1.0000
F81IG	40	-1576.7828	3397.4887	0.0000	1.0000
F81I	39	-1581.9555	3401.7359	0.0000	1.0000
JC69G	36	-1592.1818	3403.8943	0.0000	1.0000
JC69IG	37	-1591.7786	3409.1859	0.0000	1.0000
JC69I	36	-1595.6669	3410.8645	0.0000	1.0000
HKY	39	-1590.5428	3418.9105	0.0000	1.0000
K2P	36	-1605.0523	3429.6353	0.0000	1.0000
GTR	43	-1587.2574	3436.7321	0.0000	1.0000
SYM	40	-1602.9881	3449.8992	0.0000	1.0000
F81	38	-1618.4608	3468.6484	0.0000	1.0000
JC69	35	-1632.9400	3479.3126	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/chrZ_10691.phylip = 1 - 445;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_10691.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/chrZ_10691.phylip = 1 - 445;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_10691.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/chrZ_10691.phylip = 1 - 445;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chrZ_10691.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

