siRNAs aligned to soybean genomic sequences. Collections of smRNAs with the same annotation were aligned to specific genomic sequences with Bowtie. (A) Pentatricopeptide repeat-containing protein (PPR) siRNAs to Glyma09g07250.1. (B) Auxin response factor (ARF) siRNAs to Glyma05g27580.1. (C) TIR domain resistant gene (TIR-NBS-LRR) siRNAs to Glyma12g27800.1. (D) Aquaporin siRNAs aligned to an inverted repeat with similarity to an aquaporin gene NIP6-1, Glyma07g03030.1 shown in (E). (F) Aquaporin siRNAs unrelated to those in D and E aligned to another aquaporin transporter, Glyma19g37000.1. Blue diamonds represent siRNAs aligning to the negative strand and red diamonds to the positive strand. Green arrow in (A) marks the binding site of gma-miR4413. Dashed lines connect the region of similarity in Glyma07g03030.1 (E) to the aquaporin inverted repeat (D).