C.elegans small RNAs

miR-Intess™

miR classification

miR expression

block2960_cand

block2960_cand

Cloning frequencies
absolute	CE1
block2960_cand 5arm	1
normalized	CE1
block2960_cand 5arm	0.001

block2960_cand relative cloning frequencies

block2960 [novel_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
no	0.003	no	no	0.67/0.67	24/24/1.00	0.0	0.0	2	0	1	0	16	9	5arm	2	nd	0.25	2	2	1	na	na

Families
Member of family novel4 (seed GCCAAGC): block2960_cand, block3587_cand

block2960 hairpin

		reads	miRBase family seed
seed	-----------------GCCAAGC-------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			CE1
	----------------TGCCAAGCGCTACG-TCACCAGGGG--------------------------------------------------------------------------	24	2
celegans	GTCGACCGAGCGTCCGTGCCAAGCGCTACG-TCACCAGGGGATAACTGTCGGAAGGCGGTTAGTCCCGGGTGCATAAGGAGTCGTGGATGGTTCAGGACCGAAAGGTAGCAGACA
cbriggsae	----------------TGCCAAGCGCTACG-TCGCCAGGGGTTGTCTGTCGGAGGACGGACGGTCCCGGGCGCATAAGGAGTGGTCTA---------------------------
cbrenneri	---------GCGTCCGTGCCAAGCGCTACG-TCGCTAGGGGTCATCAGACGGAAGTTTGAAGGTCCCGGGCGCATAAGGAGTGGTGTATGGTTCAGG------------------
cjaponica	---------------GTGCCAAGCGCTGCG-TCGCCAGGGGTCATCCGGCGGAGGCTGGGCGGTCCCGGGCGCTTAAGGAGTGGTGTATGGCTC---------------------
cremanei	----------------TGCCAAGCGCTGCGTTCACTAGGGGTCATCCTTCGGAAGAGGGGCGGTCCCGGGTGCATAAGGAGCGGTGGATGGTT----------------------
	********* ** * ***** * **** * * ****** ***** *
	----------------------------------- -----------------------------------------------------------------------------------------	R144.1 R144.1 klp-6
celegans	(((.(((...(((((..((((.(((((..( (((((.(((..((((((((....))))))))..))).)))).))....)).)))...))))...))).))...)))....))).	0.920 -49.10
cbriggsae	.((((....((..( (((((.(((..((((((((....))))))))..))).)))).))..))..))))...	0.985 -33.00
cbrenneri	....((..((((.(((((((. .((((.((((((.((((((....)))))).)))))).))))........))))))).))))...))	0.999 -37.90
cjaponica	..((((.(((((((. .((((.((((((..(((((....)))))..)))))).))))........))))))).))))..	0.876 -38.40
cremanei	.((((..((((((...((((.((((((..(((((....)))))..)))))).))))........))))))..)))).	1.000 -34.90

celegans	chromosome:III:5031463:5031576:-1	Opposite_strand\|Intronic_coding\|R144.1\|R144.1 ## R144.1\|protein_coding\|klp-6\|klp-6 encodes a predicted monomeric kinesin and member of the UNC-104 family. [Source: WormBase] ## {SimpF: WRM065dA04 -1 fosmid,WRM0617cE05 -1 fosmid,WRM0623aF05 -1 fosmid,WRM068bC01 -1 fosmid,WRM0610cB11 -1 fosmid,WRM0624cG01 -1 fosmid}
cbriggsae	chromosome:chrX:20313769:20313922:-1	Opposite_strand\|Exonic_coding\|NM_065481
cbrenneri	chromosome:chrUn:106785266:106785352:1	intergenic
cjaponica	chromosome:chrUn:12702827:12702904:-1	intergenic
cremanei	chromosome:chrUn:133256206:133256359:1	Opposite_strand\|Exonic_coding\|NM_065481 ## Same_strand\|Intronic_coding\|NM_001002694

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