PASTA: splice junction identification from RNA-Sequencing data

Tang, Shaojun; Riva, Alberto

doi:10.1186/1471-2105-14-116

BMC Bioinformatics

Table 4 Average probability scores and percentages of canonical junctions

From: PASTA: splice junction identification from RNA-Sequencing data

		Cov = 1			Cov > 1
Run	Lane id	Junctions	Avg Score	Canonical fraction	Junctions	Avg Score	Canonical fraction
1	1	182951	0.208	0.169	161315	0.71	0.706
	3	151512	0.215	0.185	146821	0.71	0.72
	5	225167	0.181	0.143	168571	0.697	0.683
	6	214297	0.167	0.139	160157	0.665	0.673
	7	196135	0.176	0.141	186288	0.607	0.6
	8	286174	0.174	0.132	224290	0.609	0.569
2	1	185119	0.407	0.142	182407	0.743	0.698
	2	111081	0.4	0.256	121711	0.86	0.853
	3	128474	0.364	0.22	128610	0.833	0.822
	5	120223	0.424	0.243	129222	0.853	0.84
	6	153947	0.37	0.183	155789	0.78	0.754
	7	179484	0.38	0.151	199578	0.66	0.624
	8	185332	0.381	0.146	201870	0.656	0.615
		Cov <= 2			Cov > 2
1	1	219248	0.239	0.204	125018	0.801	0.802
	3	186561	0.25	0.227	111772	0.806	0.818
	5	264113	0.21	0.174	129625	0.791	0.783
	6	255218	0.196	0.172	119236	0.774	0.786
	7	247485	0.202	0.17	134938	0.724	0.722
	8	345153	0.196	0.152	165311	0.718	0.683
2	1	223944	0.413	0.179	143582	0.825	0.791
	2	135570	0.445	0.321	97222	0.913	0.912
	3	155550	0.4	0.275	101534	0.902	0.898
	5	145114	0.458	0.299	104331	0.908	0.904
	6	188431	0.387	0.223	121305	0.87	0.855
	7	229704	0.371	0.18	149358	0.767	0.739
	8	236287	0.372	0.175	150915	0.762	0.729
		Cov <=5			Cov > 5
1	1	259337	0.298	0.268	84929	0.887	0.887
	3	225201	0.318	0.302	73132	0.892	0.898
	5	305148	0.262	0.228	88590	0.881	0.878
	6	296541	0.25	0.233	77913	0.875	0.881
	7	296642	0.251	0.224	85781	0.855	0.852
	8	397801	0.234	0.187	112663	0.83	0.806
2	1	263656	0.442	0.231	103870	0.907	0.892
	2	169910	0.527	0.427	62882	0.948	0.95
	3	189370	0.475	0.37	67714	0.944	0.945
	5	178189	0.526	0.394	71256	0.947	0.948
	6	223803	0.44	0.295	85933	0.931	0.927
	7	280701	0.397	0.23	98361	0.899	0.885
	8	287818	0.395	0.222	99384	0.898	0.88
		Cov <=10			Cov > 10
1	1	289649	0.352	0.326	54617	0.924	0.922
	3	253947	0.377	0.365	44386	0.926	0.926
	5	335371	0.311	0.28	58367	0.921	0.917
	6	326184	0.3	0.286	48270	0.917	0.916
	7	326196	0.296	0.272	56227	0.907	0.902
	8	431187	0.269	0.224	79277	0.887	0.87
2	1	288984	0.475	0.278	78542	0.938	0.933
	2	197064	0.583	0.497	35728	0.958	0.96
	3	216813	0.532	0.44	40271	0.956	0.957
	5	205938	0.58	0.466	43507	0.958	0.96
	6	251758	0.49	0.36	57978	0.949	0.95
	7	308843	0.434	0.28	70219	0.936	0.93
	8	316415	0.432	0.271	70787	0.935	0.926

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ISSN: 1471-2105

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