C.elegans small RNAs

miR-Intess™

miR classification

Alignments

confident novel miRNAs

novel_cloningOK_randfoldOK (1 loci)

block8153_novel

Cloning frequencies
absolute	CE1
block8153_novel 3arm	6
normalized	CE1
block8153_novel 3arm	0.004

block8153_novel relative cloning frequencies

block8153 [novel_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
no	0.001	no	no	0.50/0.50	22/22/1.00	0.0	0.0	6	0	1	0	25	5	3arm	1	nd	0.14	3	6	1	na	na

block8153 hairpin

		reads	miRBase family seed
seed	------------------------------------------------------------------------------------AAGUGAU---------------------------------------	6	novel
		len	cloning frequencies
			CE1
	-----------------------------------------------------------------------------------CAAGTGATACCAGACCGCTAGT-------------------------	22	6
celegans	TACATTTATTCTTACTGTCCTCGAATACAAACTGGCGGTTTGCAT--TCACTTACATTT-----ATAAGACAA-----AAATGCAAGTGATACCAGACCGCTAGTTTGTAAAAGGGATAATTTTATGTGA
cremanei	--------------GCATACATGAATTTCTTCCAGACATTTGTGC--TTTAGCAGATATAACCATTAATGCAG-----CAAAGAAAGTGATC----------------TGGTAGAGGAATGTA-------
cbriggsae	--------------GTGCGTAGAAAATTATGATAACATTTGGAATTATTGTTTAAAGTT-----TGGAAGAAGACACACAAAACAAGTGATC----------------CGGAAAATGTTATCG-------
cjaponica	-----------------------AATTTTTG---GCTATTAGCCG--TCGATT-----------TCAATGCAACTGCCAAATTCAAGTGATGGC--------------TAATAGCCAAAAATT-------
ppacificus	-----------------------------TGGCTGCTGTCAGCAT--TCCTTCTCTTGT-----TCGAGACAA-----AAAGTGAAGTGATC-------------------AACTGATCAGCTC------
	* * * * * ***** *
celegans	(((((..........((((((....(((((((((((((((((... ((((((.((((( ......... ))))).))))))...)))))))))))))))))...)))))).....))))).	0.930 -42.46
cremanei	...(((((...(((((.((((((((((.((( (...(((..............))))) ))....))))).)) ))).))))).)))))	0.999 -22.44
cbriggsae	................(((((((((((((....((((((...((( (......)))).....))))))....)) ))...))))))))).	0.968 -17.10
cjaponica	(((((((( ((((((((((( ((.((( (.(((((....))...))).)))))))))) )))))))))))))))	0.999 -32.00
ppacificus	.(((((..(((((... ((((((.(((.. ......... .))).)))).)).. ..)))))))))).	0.997 -16.80

celegans	chromosome:X:1390843:1390960:1	intergenic ## {SimpF: WRM0636bA02 1 fosmid,WRM0639aA01 1 fosmid,WRM064cE08 1 fosmid,WRM063cH01 1 fosmid,WRM0629aD05 1 fosmid,WRM0638dE02 1 fosmid,WRM0625bG09 1 fosmid}
cremanei	chromosome:chrUn:40953794:40953879:1	Opposite_strand\|Exonic_coding\|NM_062585 ## Same_strand\|Intronic_coding\|NM_062681
cbriggsae	chromosome:chrX:7915695:7915782:-1	Same_strand\|Intronic_coding\|NM_133381
cjaponica	chromosome:chrUn:70185177:70185246:1	intergenic ## {SimpF: trf,trf}
ppacificus	chromosome:chrUn:121899751:121899908:1	Same_strand\|Intronic_coding\|NM_001080348 ## Opposite_strand\|Intronic_coding\|NM_213308

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confident novel miRNAs:

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