miRDeep2
miRBase precursor id
Clicking this field will display a pdf of the structure and read signature of the miRNA.
total read count
this is the sum of read counts for the mature and star miRNAs.
mature read count(s)
this is the number of reads that map to the miRNA hairpin and are contained in the sequence covered by the mature miRNA, including 2 nts upstream and 5 nts downstream. If more than one mature sequence is given this will be a comma separated list. In parenthesis are normalized read counts shown.
star read count
this is the number of reads that map to the miRNA hairpin and are contained in the sequence covered by the star miRNA, including 2 nts upstream and 5 nts downstream. This field is empty unless a reference star miRNA was given as input to quantifier.pl. If more than one mature sequence is given this will be a comman separated list
remaining reads
this is the number of reads that did not map to any of the mature and star sequences
UCSC browser
if a species name was input to miRDeep2, then clicking this field will initiate a UCSC blat search of the miRNA precursor sequence against the reference genome.
NCBI blastn
clicking this field will initiate a NCBI blastn search of the miRNA precursor sequence against the nr/nt database (non-redundant collection of all NCBI nucleotide sequences).
miRBase mature sequence(s)
this is/are the mature miRNA sequence(s) input to quantifier.pl.
miRBase star sequence(s)
this is/are the star miRNA sequence(s) input to quantifier.pl. This field is empty unless a reference star miRNA was given as input to quantifier.pl.
miRBase precursor sequence
this is the precursor miRNA sequence input to quantifier.pl.