C.elegans small RNAs

miR-Intess™

miR classification

miR expression

cel-mir-255

cel-mir-255

Cloning frequencies
absolute	CE1
cel-mir-255 3arm	2
normalized	CE1
cel-mir-255 3arm	0.001

cel-mir-255 relative cloning frequencies

block7127 (miRBase cel-mir-255) [miRNAknown_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-255	0.006	no	no	0.27/0.27	22/22/1.00	0.0	0.0	2	0	1	0	27	6	3arm	1	nd	0.18	3	2	1	na	na

block7127 hairpin

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------AACUGAA--------------------------------------------------	2	miR-255
		len	cloning frequencies
			CE1
cel-miR-255	----------------------------------------------------------------------------------AAACTGAAGAG--------ATTTTTTACAG----------------------------	22	2
celegans	CAGTGGTTCGACTAAATTTTGGA---GGTAAGAAATC---TTTGTAGT-------TCTCCG------TATTGTGAC--GTGAAAACTGAAGAG--------ATTTTTTACAGACT-TCACAAATTTGAAATATATTCCTG
cbriggsae	--------GATGTCTCTTCATTATCAGGTAAGAAATC---TTTGTAGT-------TTTCCG------CGAGTCAAC--GTGAAAACTGAAGAG--------ATTTTTTACAGATTCCGGAGGAGCATC------------
cbrenneri	-------------------------AGGTAAGAAATC---TTTGTGGT-------TTTCCG------TTATGAGAC--GAGAAAACTGAAGAG--------ATTTTTTACAG----------------------------
cjaponica	------CTCACGCAAATCCTGGA---------------------CAGT-------TTACGG------AGATTGAACCGGCGAAAACTGAATGT--------TTGTATTGAA-----------------------------
ppacificus	GGATATTAGTTGTGGATTCCGAAAAGAGTGCGCAATCAGAGTCACGGTCTCTTCATTACCGAGCTATTGAGAGAGT--GTGCGAACTGAAGAGACGGTGACACGTATTGCGCATTCTCTCGGTTCAGTTGTGTAGTATCT
cremanei	-------------------------AGGTAAGAAATC---TTTGTGGT-------TTTCCG------TGTTTAAAC--GCGAAAACTGAAGAG--------ATTTTTTACAG----------------------------
	** * * * * * ******* * **
celegans	(((..((.....((((((((((( ((((((((((( (((.(((( (.(((( (......)) ).)).))))).)))) )))))))))...)) ))).)))))))......))..)))	1.000 -29.40
cbriggsae	((((.((((((...(((..(((((((((( (((.(((( (((.(( ((......) )))))))))).)))) ))))))))).)))....))))))))))	1.000 -37.60
cbrenneri	..(((((((((( (((.(((( (((((( ((....))) ).)))))))).)))) )))))))))..	1.000 -25.00
cjaponica	.(((.((((((...... (((( ((.((( ........)))....))))))...)) ))))..))).	0.875 -10.90
ppacificus	((((((((......((..((((..((((((((((((....(((((.(((((((((....((.((..((....)).. )).))...))))))))).)))))....)))))))))))).)))).)).......))))))))	0.991 -54.92
cremanei	..(((((((((( (((.(((( (((((( (......)) ).)))))))).)))) )))))))))..	1.000 -24.80

celegans	chromosome:V:5440623:5440732:1	intergenic ## {SimpF: WRM064dG03 1 fosmid,WRM0628aF03 1 fosmid,WRM0615bE04 1 fosmid,WRM0629cD12 1 fosmid,WRM0634bA01 1 fosmid,WRM0612bH07 1 fosmid,WRM0619cH11 1 fosmid} ## {MIR: cel-mir-255}
cbriggsae	chromosome:chrV:8908222:8908315:1	Opposite_strand\|Intronic_coding\|NM_001011629 ## {MIR: cbr-mir-255}
cbrenneri	chromosome:chrUn:186086568:186086717:1	intergenic
cjaponica	chromosome:chrUn:104537755:104537904:-1	Same_strand\|Intronic_coding\|NM_066158
ppacificus	chromosome:chrUn:118664607:118664744:1	Opposite_strand\|Intronic_coding\|NM_102771
cremanei	chromosome:chrUn:141254722:141254871:1	Opposite_strand\|Intronic_coding\|NM_072673

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