C.elegans small RNAs

miR-Intess™

miR classification

miR expression

cel-mir-61

cel-mir-61

Cloning frequencies
absolute	CE1
cel-mir-61 3arm	16
normalized	CE1
cel-mir-61 3arm	0.011

cel-mir-61 relative cloning frequencies

block6710 (miRBase cel-mir-61) [miRNAknown_cloningOK_randfoldOK]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
miRBase cel-mir-61	0.001	no	no	0.41/0.44	18/22/0.76	0.0	0.9	14	0	1	0	16	5	3arm	1	nd	0.14	2	16	1	na	na

Clusters
Located in cluster 6: cel-mir-250, cel-mir-61

Families
Member of family miR-44/45/61 (seed GACUAGA): cel-mir-61, cel-mir-44, cel-mir-45

block6710 hairpin

		reads	miRBase family seed
seed	---------------------------------------------------------------------------GACUAGA-----------------------------------------	16	miR-44/45/61
		len	cloning frequencies
			CE1
cel-miR-61	--------------------------------------------------------------------------TGACTAGAACCGTTACTCATC----------------------------	21	10
	--------------------------------------------------------------------------TGACTAGAACCGTTACTC-------------------------------	18	4
	--------------------------------------------------------------------------TGACTAGAACCGTTACTCATCT---------------------------	22	2
celegans	--------------TATCGCTGAACCTCGAGATGGGT-TACGGGGCTTAGTCCTTCCTCCGT-----ATGGCAATGACTAGAACCGTTACTCATCTCGAGGTTTCGG-----------TGAT-
cbriggsae	----------------TCG--GTGTCTCGAGCCGAGT-TAAGGCTAATAGTCCTTCCGGTGT-----ATGGTAATGACTAGAACCTTGACTCTGCTCGAGTTACTGA-----GCTCTTTGA--
cjaponica	--------GTCAAATTTACGCGATTCGCGAGTTGGGCGCACGGCGTTTAGTCCTTTCAACACGTGAAATGGTAATGACTAGAACCGTCGCTCATCCCGCGTCTATGC-----GGCTATTTGTC
cbrenneri	CCAGTCTCGTAAAACAT-GTTGAACTTCGAGTTGGGT-CACGGTGCTTAGTCCTTCCAACAG-----TCGGTAATGACTAGAACCGTGACTCAGCTCGAGGAAGCGACAGTTTTTCACTGG--
cremanei	--------GCGTAATATCG--GTCTTCCGAGTTGGGT-CACGGCGCTTAGTCCTTCCGACAT-----ATGGCAATGACTAGAACCTTGGCTCAGCTCGGGACTCCGA-----------TGAGC
	* * **** * * * ****** * *********** * *** * ** * * *
celegans	.(((((((((((((((((((((( .((((..((.((((.((((..... ..)).)).))))))..)))).))))))))))))))).))) ))))	1.000 -50.50
cbriggsae	((( (((.(((((((.(((( (((((....(((((.(((((.... .))).)).)))))...))))))))).))))))).)))))) .........	0.998 -42.10
cjaponica	..(((((...((((...((((...((((((.((((..(((((((((((((.....))))).)).....)))))).))))))))))...))))....))) )...)))))..	0.994 -36.70
cbrenneri	(((((.....(((((.( ((((..((((((((((((( ((((((..((((((.((((..... ..)).)).)))))).)))))))))))))))))))...))))))))))..)))))	1.000 -55.70
cremanei	......((((( (..((((((((((((( ((.((..((.((((.(((((.... .))).)).))))))..)).)))))))))))))))..)))) ))...	1.000 -43.80

celegans	chromosome:V:11770038:11770128:-1	intergenic ## {SimpF: WRM0616dF12 -1 fosmid,WRM0630cB01 -1 fosmid,WRM064dC03 -1 fosmid,WRM0611bB04 -1 fosmid,WRM0628cB12 -1 fosmid} ## {MIR: cel-mir-61}
cbriggsae	chromosome:chrV:6755266:6755357:-1	Opposite_strand\|Intronic_coding\|NM_007734 ## Same_strand\|Intronic_coding\|NM_000945 ## {MIR: cbr-mir-61}
cjaponica	chromosome:chrUn:133811034:133811143:-1	intergenic
cbrenneri	chromosome:chrUn:84265051:84265164:1	intergenic
cremanei	chromosome:chrUn:126693023:126693118:-1	Opposite_strand\|Intronic_coding\|NM_073652 ## Same_strand\|Intronic_coding\|NM_067460

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