#seq1	seq2	Ka	Ks	Ka/Ks	Length	S-Sites	N-Sites	Substitutions	S-Substitutions	N-Substitutions
rpS3|P.biaurelia-Sample_379	rpS3|P.sexaurelia-Sample_130	0.165513	99	0.00167184	366	54.0776	311.922	105	58.8211	46.1789
rpS3|P.biaurelia-Sample_379	rpS3|P.tetraurelia-Sample_291	0.158686	1.27314	0.124641	363	85.414	277.586	92	52.3287	39.6713
rpS3|P.biaurelia-Sample_379	rpS3|Sample_Peniche3I	0.783946	1.10011	0.712608	333	97.2134	235.787	161	48.7597	112.24
rpS3|P.biaurelia-Sample_379	rpS3|P.multimicronucleatum-Sample_M04	0.700155	1.64999	0.424339	333	81.3535	251.647	167	54.2543	112.746
rpS3|P.biaurelia-Sample_379	rpS3|Sample_C026	0.627225	2.05504	0.305214	369	95.2804	273.72	182	66.8463	115.154
rpS3|P.biaurelia-Sample_379	rpS3|P.octaurelia-Sample_1038	0.159379	1.83359	0.0869215	363	100.056	262.944	92	54.3406	37.6594
rpS3|P.biaurelia-Sample_379	rpS3|P.caudatum-Sample_C104	0.640833	1.68452	0.380425	369	98.7163	270.284	181	66.2027	114.797
rpS3|P.biaurelia-Sample_379	rpS3|Sample_M13	0.865526	0.842589	1.02722	330	101.052	228.948	160	45.7919	114.208
rpS3|P.sexaurelia-Sample_130	rpS3|P.tetraurelia-Sample_291	0.187382	1.4818	0.126456	366	90.3694	275.631	104	58.3791	45.6209
rpS3|P.sexaurelia-Sample_130	rpS3|Sample_Peniche3I	0.58076	1.17473	0.494376	378	110.109	267.891	171	65.3374	105.663
rpS3|P.sexaurelia-Sample_130	rpS3|P.multimicronucleatum-Sample_M04	0.625672	1.38813	0.450732	372	97.6467	274.353	176	61.7293	114.271
rpS3|P.sexaurelia-Sample_130	rpS3|Sample_C026	0.609307	1.63291	0.373142	423	113.886	309.114	202	75.7323	126.268
rpS3|P.sexaurelia-Sample_130	rpS3|P.octaurelia-Sample_1038	0.192938	3.35377	0.0575287	363	87.5053	275.495	114	67.2084	46.7916
rpS3|P.sexaurelia-Sample_130	rpS3|P.caudatum-Sample_C104	0.550971	1.43251	0.384619	423	119.223	303.777	192	76.1763	115.824
rpS3|P.sexaurelia-Sample_130	rpS3|Sample_M13	0.63198	1.0727	0.589151	375	111.341	263.659	173	63.5275	109.473
rpS3|P.tetraurelia-Sample_291	rpS3|Sample_Peniche3I	0.7809	3.1751	0.245945	333	106.986	226.014	166	59.3894	106.611
rpS3|P.tetraurelia-Sample_291	rpS3|P.multimicronucleatum-Sample_M04	0.787101	1.31461	0.598731	330	95.5209	234.479	171	59.2265	111.774
rpS3|P.tetraurelia-Sample_291	rpS3|Sample_C026	0.597505	1.70169	0.351124	366	97.9587	268.041	175	65.8706	109.129
rpS3|P.tetraurelia-Sample_291	rpS3|P.octaurelia-Sample_1038	0.097364	0.988772	0.0984696	363	96.8209	266.179	70	45.7127	24.2873
rpS3|P.tetraurelia-Sample_291	rpS3|P.caudatum-Sample_C104	0.632871	1.69085	0.374293	366	104.424	261.576	180	70.0999	109.9
rpS3|P.tetraurelia-Sample_291	rpS3|Sample_M13	0.751973	1.34647	0.558476	330	103.429	226.571	158	53.1569	104.843
rpS3|Sample_Peniche3I	rpS3|P.multimicronucleatum-Sample_M04	0.119647	2.07712	0.0576022	441	45.4527	395.547	72	28.4934	43.5066
rpS3|Sample_Peniche3I	rpS3|Sample_C026	0.404595	1.79175	0.22581	483	62.9609	420.039	173	42.8896	130.11
rpS3|Sample_Peniche3I	rpS3|P.octaurelia-Sample_1038	0.754463	1.72344	0.437767	330	95.1215	234.878	163	54.4122	108.588
rpS3|Sample_Peniche3I	rpS3|P.caudatum-Sample_C104	0.382008	1.97438	0.193483	483	70.9249	412.075	166	44.2144	121.786
rpS3|Sample_Peniche3I	rpS3|Sample_M13	0.0464722	0.409131	0.113588	471	69.9701	401.03	38	20	18
rpS3|P.multimicronucleatum-Sample_M04	rpS3|Sample_C026	0.443887	1.03454	0.429069	468	58.0013	409.999	166	30.4708	135.529
rpS3|P.multimicronucleatum-Sample_M04	rpS3|P.octaurelia-Sample_1038	0.780243	1.33759	0.58332	330	81.4489	248.551	169	50.8206	118.179
rpS3|P.multimicronucleatum-Sample_M04	rpS3|P.caudatum-Sample_C104	0.44442	1.14939	0.386659	468	71.9225	396.077	168	37.4132	130.587
rpS3|P.multimicronucleatum-Sample_M04	rpS3|Sample_M13	0.137241	1.84165	0.0745204	438	48.0281	389.972	76	27.3469	48.6531
rpS3|Sample_C026	rpS3|P.octaurelia-Sample_1038	0.551937	4.30995	0.128061	366	87.3505	278.65	173	65.3036	107.696
rpS3|Sample_C026	rpS3|P.caudatum-Sample_C104	0.275829	3.63252	0.0759332	1089	126.895	962.105	325	104.467	220.533
rpS3|Sample_C026	rpS3|Sample_M13	0.421321	1.09963	0.38315	480	64.9628	415.037	169	36.3163	132.684
rpS3|P.octaurelia-Sample_1038	rpS3|P.caudatum-Sample_C104	0.533766	1.99487	0.26757	366	87.5832	278.417	166	61.0918	104.908
rpS3|P.octaurelia-Sample_1038	rpS3|Sample_M13	0.85417	0.801416	1.06583	327	99.8725	227.127	157	45.314	111.686
rpS3|P.caudatum-Sample_C104	rpS3|Sample_M13	0.424244	0.934391	0.454033	480	80.1305	399.87	169	40.9661	128.034
#Average Ks: 4.36957747222
#Average Ka: 0.491728616667
#Average KaKs: 0.351179984444