Table 2 Number of known miRNAs and novel miRNA candidates in E (early lactation) and L (late lactation) libraries.

Groups	Total		E library		L library
Groups	Pre-miRNA	Unique miRNA	Pre-miRNA	Unique miRNA	Pre-miRNA	Unique miRNA
Group 1a	293	397	219	330	237	358
Group 1b	138	159	118	132	123	137
Group 2	735	829	513	573	528	584
Group 3	54	57	44	47	35	38
Group 4	47	45	44	42	39	41

^*Group 1a: the reads mapped to miRNAs/pre-miRNAs of Capra hircus in miRBase and the pre-miRNAs further mapped to the genome and EST of Capra hircus. Group 1b: the reads mapped to mammalian miRNAs/pre-miRNAs (except for Capra hircus) in miRBase and the pre-miRNAs further mapped to the genome and EST of Capra hircus. Group 2: the reads mapped to mammalian miRNAs/pre-miRNAs (except for Capra hircus) in miRBase, the mapped pre-miRNAs not further mapped to the genome, and the reads (and of course the miRNAs of the pre-miRNAs) mapped to the genome. Group 3: the reads mapped to mammalian miRNAs/pre-miRNAs (except for Capra hircus) in miRBase and the reads and the mapped pre-miRNAs not mapped to the genome. Group 4: the reads not mapped to mammalian pre-miRNAs in the miRBase but mapped to the genome and EST of Capra hircus and the extended genome sequences that may form hairpin structures.

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