C.elegans small RNAs

miR-Intess™

miR classification

miR expression

cel-mir-1820

cel-mir-1820

block5575 (miRBase cel-mir-1820) [miRNAknown_lenNOK_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-1820	0.001	no	no	0.28/0.28	25/25/0.00	nd	nd	0	0	0	0	22	3	5arm	1	nd	0.16	2	0	0	na	na

block5575 hairpin

		reads	miRBase family seed
seed	-----------------------------------------UUUGAUU----------------------------------------------------------------------------------------------------------	0	novel
		len	cloning frequencies

cel-miR-1820	----------------------------------------TTTTGATTG-TTTTTCGATG-ATGTTC---------------------------------------------------------------------------------------	25
celegans	------------------TTCAAAAATTGCATTTTCCATCTTTTGATTG-TTTTTCGATG-ATGTTCGTTAAATCGGTATAAG---CGAACCATTGTAAA---CAATCAAAGAATGGAGAATCAATTTATGAT---------------------
cremanei	TCTGGTATTTTTCTGATATTTTTCTGATCTCATTTCCATTTTTTGATTG-TTATTCGATG--ATGTCGTCGAATGGAATTGT----CGAACCATTGAAAA---TAATCAAAAAATGGAGAGAGATTCAAGTTTTGAATTGGTAAGAAGTCCAGA
cbriggsae	----------------------------------------TTTTGATTGATTTTTCGGTT--TTGTTATCTATTTTCGGCAT----AGAAACTCTGAAAAACGCAATTTTAA------------------------------------------
cbrenneri	---------------------------------CCGTTCTTTTTGATTGTTTTTACTAGG-ATCTGAATTCTTTT-----------CAGGACCTCCACAA---TAATCAGA-------------------------------------------
cjaponica	GTGTCAATGCTTACTATACTCGCGGAGGCTTGTCGCCGTCTTTTGATTG-TTATTCGATG-ATGTTCGACGTTTTTGTGAATACGTCGAACCATTGAAAA---CTGTCAAAACATGACGATTGTGCCGAAATTTGTCAGGTTTGTGGCC-----
ppacificus	----------------------------------------GTTTGATTG-TTTGTCGATGCATTGTTATCAGATCACG--------AGAGACATTGAAGAGA-CAATTGAAA------------------------------------------
	****** * * * * * *
celegans	.(((.((((((.(((((((((..(((((((( (((..((((( ..(((((((...........)) )))))))))).))) ))))))))..))))))))))))))).))).	1.000 -39.90
cremanei	(((((..((((((((((......((((((((.((((((((((((((((( ((.((((((( ...(((.(((......))). )))..))))))))) )))))))))))))))))))))))..))......))))).)))))..)))))	0.921 -50.00
cbriggsae	....(((((.((((((((.. ..(((.(((((.......)) )))))).))))))))..)))))....	1.000 -11.70
cbrenneri	........((((((((((......((( .((((((.....)) )))).)))....)) ))))))))	0.999 -15.30
cjaponica	..((((..((((((........(((..((..((((.(((.(((((((.( ((.((((((( ..(((((((((.((....)).)))))))))))))))))) ).))))))).))).)))).)).)))......)).))))...)))).	0.930 -44.84
ppacificus	.((..(((( (((.((((((..((((.........))) )....))))))..))) ))))..)).	0.962 -14.50

celegans	chromosome:IV:7767444:7767550:1	intergenic ## {SimpF: WRM068dD06 1 fosmid,WRM067dH10 1 fosmid,WRM0640dD07 1 fosmid} ## {MIR: cel-mir-1820}
cremanei	chromosome:chrUn:43869115:43869258:-1	Opposite_strand\|Intronic_coding\|NM_200104
cbriggsae	chromosome:chrIV:13380242:13380388:1	Same_strand\|Intronic_coding\|NM_067049 ## Opposite_strand\|Intronic_coding\|NM_064726
cbrenneri	chromosome:chrUn:116745940:116746002:1	Same_strand\|UTR_coding\|NM_068392
cjaponica	chromosome:chrUn:64052439:64052582:1	intergenic
ppacificus	chromosome:chrUn:3495593:3495739:-1	Opposite_strand\|Intronic_coding\|NM_001045347 ## Same_strand\|Intronic_coding\|NM_001001910

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