
Output from mraic.pl version 1.4.4 by Johan Nylander
-------------------------------------------------------------
11:26 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/chr1_14956.phylip" (19 taxa, 475 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	-1557.6540	3202.8656	0.5696	0.5696
HKYI	40	-1558.5196	3204.5968	0.2397	0.8093
HKYIG	41	-1557.6372	3205.2282	0.1748	0.9841
GTRG	44	-1556.9264	3211.0621	0.0095	0.9935
GTRI	44	-1557.8959	3213.0011	0.0036	0.9971
GTRIG	45	-1556.9010	3213.4523	0.0029	1.0000
K2PG	37	-1571.3809	3223.1967	0.0000	1.0000
HKY	39	-1570.6872	3226.5468	0.0000	1.0000
SYMG	41	-1571.1158	3232.1855	0.0000	1.0000
GTR	43	-1569.8372	3234.4539	0.0000	1.0000
K2PI	37	-1577.0928	3234.6203	0.0000	1.0000
K2PIG	38	-1576.2816	3235.3615	0.0000	1.0000
SYMI	41	-1576.6615	3243.2769	0.0000	1.0000
SYMIG	42	-1575.8395	3244.0401	0.0000	1.0000
K2P	36	-1583.7268	3245.5357	0.0000	1.0000
SYM	40	-1583.4163	3254.3901	0.0000	1.0000
F81G	39	-1596.1576	3277.4877	0.0000	1.0000
F81I	39	-1596.9741	3279.1206	0.0000	1.0000
F81IG	40	-1596.1450	3279.8476	0.0000	1.0000
JC69G	36	-1607.1002	3292.2827	0.0000	1.0000
JC69I	36	-1609.9329	3297.9479	0.0000	1.0000
F81	38	-1607.8410	3298.4801	0.0000	1.0000
JC69IG	37	-1609.0944	3298.6236	0.0000	1.0000
JC69	35	-1618.7086	3313.1575	0.0000	1.0000



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

Model	df	lnL		AIC		wAIC	cwAIC
HKYG	40	-1557.6540	3195.3080	0.5372	0.5372
HKYI	40	-1558.5196	3197.0392	0.2260	0.7632
HKYIG	41	-1557.6372	3197.2744	0.2010	0.9642
GTRG	44	-1556.9264	3201.8528	0.0204	0.9846
GTRI	44	-1557.8959	3203.7918	0.0077	0.9923
GTRIG	45	-1556.9010	3203.8019	0.0077	1.0000
K2PG	37	-1571.3809	3216.7619	0.0000	1.0000
HKY	39	-1570.6872	3219.3744	0.0000	1.0000
SYMG	41	-1571.1158	3224.2317	0.0000	1.0000
GTR	43	-1569.8372	3225.6743	0.0000	1.0000
K2PI	37	-1577.0928	3228.1856	0.0000	1.0000
K2PIG	38	-1576.2816	3228.5633	0.0000	1.0000
SYMI	41	-1576.6615	3235.3230	0.0000	1.0000
SYMIG	42	-1575.8395	3235.6790	0.0000	1.0000
K2P	36	-1583.7268	3239.4535	0.0000	1.0000
SYM	40	-1583.4163	3246.8325	0.0000	1.0000
F81G	39	-1596.1576	3270.3152	0.0000	1.0000
F81I	39	-1596.9741	3271.9481	0.0000	1.0000
F81IG	40	-1596.1450	3272.2900	0.0000	1.0000
JC69G	36	-1607.1002	3286.2005	0.0000	1.0000
F81	38	-1607.8410	3291.6819	0.0000	1.0000
JC69I	36	-1609.9329	3291.8657	0.0000	1.0000
JC69IG	37	-1609.0944	3292.1888	0.0000	1.0000
JC69	35	-1618.7086	3307.4172	0.0000	1.0000



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

Model	df	lnL		BIC		wBIC	cwBIC
HKYG	40	-1557.6540	3361.8406	0.6762	0.6762
HKYI	40	-1558.5196	3363.5718	0.2845	0.9607
HKYIG	41	-1557.6372	3367.9703	0.0316	0.9923
K2PG	37	-1571.3809	3370.8045	0.0076	0.9999
HKY	39	-1570.6872	3381.7437	0.0000	1.0000
K2PI	37	-1577.0928	3382.2282	0.0000	1.0000
GTRG	44	-1556.9264	3385.0386	0.0000	1.0000
K2PIG	38	-1576.2816	3386.7693	0.0000	1.0000
GTRI	44	-1557.8959	3386.9777	0.0000	1.0000
K2P	36	-1583.7268	3389.3328	0.0000	1.0000
GTRIG	45	-1556.9010	3391.1511	0.0000	1.0000
SYMG	41	-1571.1158	3394.9276	0.0000	1.0000
GTR	43	-1569.8372	3404.6969	0.0000	1.0000
SYMI	41	-1576.6615	3406.0189	0.0000	1.0000
SYMIG	42	-1575.8395	3410.5382	0.0000	1.0000
SYM	40	-1583.4163	3413.3651	0.0000	1.0000
F81G	39	-1596.1576	3432.6845	0.0000	1.0000
F81I	39	-1596.9741	3434.3174	0.0000	1.0000
JC69G	36	-1607.1002	3436.0798	0.0000	1.0000
F81IG	40	-1596.1450	3438.8226	0.0000	1.0000
JC69I	36	-1609.9329	3441.7451	0.0000	1.0000
JC69IG	37	-1609.0944	3446.2315	0.0000	1.0000
F81	38	-1607.8410	3449.8879	0.0000	1.0000
JC69	35	-1618.7086	3453.1332	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/chr1_14956.phylip = 1 - 475;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_14956.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/chr1_14956.phylip = 1 - 475;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_14956.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/chr1_14956.phylip = 1 - 475;
 Partition Dummy = 1:/Users/bcf/Git/brant/seqcap/Manuscripts/Tetrapods/Nature/Data/917Loci_19Species/alignments_from_loci/917Loci_19Species_alignments_phylip/chr1_14956.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

