TPMA: A two pointers meta-alignment tool to ensemble different multiple nucleic acid sequence alignments
Fig 5
Comparative analysis of accurate and fast strategies.
TPMA_C4 is derived from the merged alignment by combining the initial alignments obtained through accurate strategy (ClustalW2, MAFFT, MUSCLE3, and T-Coffee), while TPMA_F4 results from that of the fast strategy (HAlign3, Kalign3, MAFFT, and WMSA2). The time indicated the aggregate of the running time for the four MSA tools within the combined strategy. Meanwhile, the memory reflects the highest memory consumption observed during the aligning process of the four MSA tools in the combined strategy. A-D aSP, Q, and TC scores of TPMA_C4 and TPMA_F4 on the 16S-like, 23S-like, simulated CIPRES-128 and CIPRES-256 rRNA datasets, along with the overall time and memory peak consumption during acquiring all initial alignments. Each point in A and B represents the average value from three replicates within the sub-dataset of 16S-like and 23S-like rRNA datasets. Meanwhile, both CIPRES rRNA datasets consist of 10 replicates. E-H aSP score of TPMA_C4 and TPMA_F4 on the 16S rRNA, HVS-II, 23S rRNA, and mt genomes datasets with the time and memory of that required to obtain all initial alignments. The 16S rRNA, HVS-II, 23S rRNA, and mt genome datasets comprised 8, 10, 10, and 4 replicates, respectively.