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Table 1 Comparison of computational tools for microRNA analysis

From: miREvo: an integrative microRNA evolutionary analysis platform for next-generation sequencing experiments

Feature miROrtho[4] miRNA-miner[21] microHAR-VESTER[20] miRanalyzer[18] miRExpress[17] miRDeep-P[9] miRDeep2[22] UEA sRNA toolkit[19] miREvo
Next-generation sequencing technology support × × ×
Expression profiling × × × ×
comparison of orthologous gene expression × × × × × × × ×
Novel miRNA Prediction for plant/animal Animal Animal × Both × Plant Animal Both Both
Stem-loop structure viewing
Homology searching in plant/animal kingdom Animal Animal Plant × × × × × Both
evolutionary distance calculating × × × × × × × ×
Multiple miRNAs queries support × × 5 sequences max × × × ×
Standalone/Web-service Web Web Web Both Standalone Standalone Standalone Both Standalone
GUI/CLI GUI GUI GUI Both CLI CLI CLI GUI Both
  1. √, with the feature; ×, without the feature; GUI, Graphical User Interface; CLI, Command Line Interface.