Illumina MiSeq Sequencing for Preliminary Analysis of Microbiome Causing Primary Endodontic Infections in Egypt

Table 1

Sequence analysis for the generated reads and the remaining reads after preprocessing, filtration, preclustering, and chimeras removal.

Sample code	Total reads	Reads passing quality filtering	Number of unique reads	Total number of reads before preclustering	Total number of reads after preclustering	Number of chimeras	Number of reads after chimeras removal	Percentage of chimeras sequence
1	130378	102374	69001	52390	22726	4334	18392	19.10%
2	99713	78230	52970	43726	20319	6216	14103	30.60%
3	148927	117143	83994	65789	30793	7323	23470	23.80%
4	136015	107981	73508	52409	24382	5070	19312	20.80%
5	91410	72590	54671	43282	22740	4037	18702	17.80%
6	159563	124396	81290	65593	29018	7503	21515	25.90%
7	179597	140847	94637	72983	32522	6942	25580	21.30%
8	153991	121551	76195	59673	26540	8457	18083	31.90%
9	140290	108819	77616	59922	27164	5045	22119	18.60%
10	93517	75671	50873	40472	17933	4568	13365	25.50%
11	153126	120768	91730	75798	41305	18169	23136	44%
12	159655	129432	95261	67017	31948	6394	25554	20%
13	72461	57647	40291	32138	16499	5210	11289	31.60%
14	98370	77375	56593	46254	22690	5828	16862	25.70%
15	126414	99959	65761	52345	24373	7679	16694	31.50%
16	128433	101274	65627	52214	24255	9275	14980	38.20%
17	202643	155799	107509	84438	42083	18983	23100	45.10%
18	183073	144386	96114	73998	33752	8485	25267	25.10%
20	188766	147582	107487	84994	41383	9505	31878	23%
Average	139281.2	109674.9	75848.84	59233.42	28022.37	7843.32	20179	27%