C-mii: a tool for plant miRNA and target identification

BMC Genomics

Table 3 Number of remaining input sequences from each step of target identification on the previously reported miRNA-associated target sequences of Arabidopsi s

Step/Number of remaining sequences		Default settings	Customized settings
Number of input sequences		434	434
1. Sequence loading		434	434
2. Target scanning*		410	430
3. miRNA-target folding		410	430
4. Target annotation**	UniProtKB/Swiss-Prot	400	405
	UniProtKB/TrEMBL	406	427

* The default and customized binding scores for target scanning were ≤ 4 and ≤ 6, respectively.
** The default and customized BLASTX E-values for target annotation were 1E-20 and 1E-5, respectively. Both protein databases were prepared with plants only.

ISSN: 1471-2164