C.elegans small RNAs

miR-Intess™

miR classification

miR expression

cel-mir-242

cel-mir-242

Cloning frequencies
absolute	CE1
cel-mir-242 5arm	13
normalized	CE1
cel-mir-242 5arm	0.009

cel-mir-242 relative cloning frequencies

block5338 (miRBase cel-mir-242) [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-242	0.005	no	no	0.52/0.55	20/22/1.00	0.0	0.0	12	0	1	0	15	6	5arm	1	nd	0.25	3	13	1	na	na

block5338 hairpin

		reads	miRBase family seed
seed	-----------------------------------UGCGUAG--------------------------------------------------------------------------------------------------------------	13	miR-242
		len	cloning frequencies
			CE1
	----------------------------------TTGCGTAGGCCTTTGCTTCG--------------------------------------------------------------------------------------------------	20	12
	----------------------------------TTGCGTAGGCCTTTGCTTCGAG------------------------------------------------------------------------------------------------	22	1
cel-miR-242	----------------------------------TTGCGTAGGCCTTTGCTTCGA-------------------------------------------------------------------------------------------------	21	-
celegans	-------------------TGGCTCGCGAGAGTATTGCGTAGGCCTTTGCTTCGAGAGAGAAGCTTCAGTT---------CGCAGCAATATCCTCCGCA---------------AAACTTTCCCCGGCTATGCAAAAAA-------------
cremanei	TATTCGGTATCGAGTACCAACCACGTTAAGAATATTGCGTAGGCCTTTGCTTCGAAAGAAACACTT-TACTGTT------CGCAGCAATCTCCTCCGCA---------------ATATTTTTTGATGAATTTGGTTAAAATTGAGGTGAGTG
cbrenneri	-----------------TCAAACTAGAAAAAATATTGCGTAGGCCTTTGCTTCGAAAGCCACTTGTCCCACATT------CGTAGCAATATCCTACGCA---------------ATATTTTTAC----------------------------
cjaponica	----------------------------------TTGCGTAGGCCTTTGCTTCGAAAGAAATTCTCAAAATGTT------CGCAGCAATTTCCTCCGCA---------------A-------------------------------------
ppacificus	-GAAAAAGGTTAGTCAGCTGGGACGGTCCGTGGTTTGCGTAGGCCTTCGATTGGCGATATTTCTGCACATGAATGCATCGCGCATCGACGATCTGCGCATGCCATGAACGTTCCATACCTTTTTT---------------------------
	************* * ** * * ** * * * ** *
celegans	(((((.(.((((((.(((((.(((...(((((.((((.(((....)))..)) )).)))))...))).)))) ).)))))).).))))).........	1.000 -33.40
cremanei	((((((...((((..(((((...((((((((((((((((.(((...(((((.((((((........ ..)).)) )).)))))...))).)))) )))))))).))))...))))).....))))..))))))	0.955 -37.80
cbrenneri	..........((((((((((((((((...(((((.((((................)) )).)))))...)))))))) ))))))))..	0.967 -29.69
cjaponica	.((((.(((...(((((.((((....(((.....))).)) )).)))))...))).)))) .	0.994 -17.90
ppacificus	(((((((((........(((((((...((((((.((((((((...((((.(((((((..(((.......)))...))))).))))))...)))))))).))))))..))))))).)))))))))	0.805 -49.90

celegans	chromosome:IV:4274240:4274335:1	intergenic ## {SimpF: WRM063cA10 1 fosmid,WRM0612bD07 1 fosmid} ## {MIR: cel-mir-242}
cremanei	chromosome:chrUn:129720662:129720791:-1	intergenic
cbrenneri	chromosome:chrUn:53580716:53580801:1	intergenic
cjaponica	chromosome:chrUn:34617459:34617594:-1	intergenic
ppacificus	chromosome:chrUn:148942988:148943111:-1	Same_strand\|Intronic_coding\|NM_001103783 ## Opposite_strand\|Intronic_coding\|NM_133295

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