Over the last decade, advances in next-generation sequencing (NGS) technology have resulted in the development of a variety of sequencing platforms to meet up the different user's needs. Among these platforms, Illumina's iSeq 100 has become an ideal choice for individual labs where only a certain number of throughput power is needed. In this study, we have evaluated the performance of the iSeq 100 on two most commonly sequenced bacterial analysis methods; namely, 16S rRNA based microbial taxonomic profiling (MTP) and whole genome sequencing (WGS). For MTP analysis, we have incorporated Illumina's newest 2 x 250 library kit for the iSeq 100 platform and applied it to four different samples (Soil, Stool, Fermented beans and Microbiome standards). Through the use of ChunLab's EzBioCloud database and rigorous bioinformatic pipelines, the comparison study with MiSeq data has shown high correlations in composition, alpha, and beta diversity. Likewise, the performance of bacterial WGS was measured using three different iSeq 100's library kits (1 x 150, 1 x 300 and 2 x 150) with Escherichia Coli K12. The generated sequence data were examined in TrueBacTM ID, a fully automated genome identification system. All kits produced sufficient quality genomes that contain all the up-to-date bacterial core genes (UBCG), high N50 values, and high ANI value towards E. coli genome. The evaluation conducted here shows promising results in the two most commonly performed microbial analysis, MTP and WGS, using the iSeq 100 platform.