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Figure S1. Analysis of nucleotide bias of the novel microRNA (miRNA) candidates in the four development stages of P. citri. A: the nucleotide bias analysis at each position of novel miRNA candidates in the embryo, larva, nymph and adult (from top to bottom), B: the analysis of first nucleotide bias of novel RNAs (20–24 bp in length). The colours dull-red, green, red and blue represent guanine (G), cytosine (C), adenine (A) and uracil (U), respectively.

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Table S1. Summary of data cleaning in the four sequencing libraries.

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Table S2. The statistics of total clean small RNAs mapped to chromosomes of Tetranychus urticae in the four libraries.

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Table S3. The known microRNAs and their expression level in embryo, larva, nymph and adult.

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Table S4. Known microRNAs in Panonychus citri.

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Table S5. Known microRNA families in the four developmental stages.

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Table S6. The pairwise expression level comparison results of the known microRNAs in larva and embryo.

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Table S7. The novel microRNAs and their precursors in all four libraries.

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Table S8. Target gene prediction for novel miRNAs (continued).

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Table S9. The enriched Gene Ontology (P < 0.05) terms of predicted novel microRNA target genes in the four libraries.

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Table S10. The enriched pathways (Q < 0.05) of predicted novel microRNA target genes in the four libraries.

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Table S11. The small RNA-associated repeat sequence types and their expression in embryo, larva, nymph and adult.

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Table S12. The 24–25-bp long small RNAs mapped to genome.

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Table S13. Primers used for reverse transcription (RT)-PCR, and quantitative real-time PCR.

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