miR-Intess: classification

other hairpins

novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH (14 loci)

block861 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.499	no	no	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	1	5	3arm	1	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------UUCCAAG------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------GTTCCAAGTGCAGTCTCGG-	19	1
celegans	ttcgaaatcggcgataagagctttcttcctcctggtagGTTCCAAGTGCAGTCTCGGa
	**********************************************************
celegans	(((((.....(((....((((((....((....)).))))))....)))....)))))	1.000 -12.80

celegans

chromosome:I:5453565:5453622:1

intergenic ## {SimpF: WRM062cH03 1 fosmid,WRM0633aG08 1 fosmid}

block1547 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.612	no	no	0.42/0.42	26/26/0.00	0.0	0.0	1	0	1	0	0	26	3arm	2	nd	0.40	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------------------UUUGACG------------------	1	novel
		len	cloning frequencies
			CE1
	-----------------------------------------------------------------------------------------GTTTGACGTCTCATTCTTCCAAGATG	26	1
celegans	tatctgcagttggagttgaaccagtgtcttcagttgatccttggaccacaaagacggcgagaagcccaaggagaacaaagatggcagtcGTTTGACGTCTCATTCTTCCAAGATG
	*******************************************************************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<...........	D2062.6 D2062.6 D2062.6
celegans	(((((..((.((((((..(((...((((.((..(((.((((((............(((.....)))))))))...))).)).))))...)))..)).)).))..))....)))))	0.730 -25.40

celegans

chromosome:II:2619437:2619551:-1

Opposite_strand|Boundary_non-coding|D2062.6|D2062.6 ## D2062.6|protein_coding|D2062.6|D2062.6 [Source:RefSeq_peptide;Acc:NP_494307] ## {SimpF: WRM0620bB07 -1 fosmid,D2062.6 -1 Expression_profile}

block3334 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.842	no	no	0.61/0.61	18/18/0.00	0.0	0.0	1	0	1	0	2	13	3arm	1	nd	0.44	4	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------CUGAAUU------------	1	novel
		len	cloning frequencies
			CE1
	---------------------------------------------------ACTGAATTGCCGGTCGGG--	18	1
celegans	tcgggacataaaataagtgagaaggcaagcacatactatgatgaataacttACTGAATTGCCGGTCGGGag
	***********************************************************************
	---------------------------------------------------------------------------------	Y111B2A.14.1 Y111B2A.14 pqn-80
	---------------------------------------------------------------------------------	Y111B2A.14.2 Y111B2A.14 pqn-80
celegans	((..(((....(((.((((((........((.......))........))))))..)))....)))..)).	0.890 -8.29

celegans

chromosome:III:12639548:12639618:-1

Opposite_strand|Intronic_coding|Y111B2A.14.2|Y111B2A.14 ## Y111B2A.14|protein_coding|pqn-80|The protein product of this gene is predicted to contain a glutamine/asparagine (Q/N)-rich ('prion') domain, by the algorithm of Michelitsch and Weissman (as of the WS77 release of WormBase, i.e., in wormpep77). [Source: WormBase]

block3784 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.360	no	no	0.19/0.19	26/26/0.00	0.0	0.0	2	0	1	0	3	20	5arm	1	nd	0.35	4	2	1	na	na

		reads	miRBase family seed
seed	----UUUUAUG------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			CE1
	---GTTTTATGTTTATGGTTTAATTAAGT------------------------------------------------------------------------------	26	2
celegans	tttGTTTTATGTTTATGGTTTAATTAAGTatttaaataaaaaaagtttatatttattgaatgaaattgtttttcaaatacgtgaacttgaacttcaacactacagat
	***********************************************************************************************************
celegans	(((((....((((...(((((((((..((((((((((((.....(((((.......)))))....))))))...))))))...)).)))))))..))))..))))).	0.630 -14.50

celegans

chromosome:III:9145814:9145920:1

intergenic ## {SimpF: WRM063aE09 1 fosmid,WRM0632bD09 1 fosmid,WRM0623aF12 1 fosmid,WRM0629dA07 1 fosmid,WRM0611aH11 1 fosmid,WRM0628aC02 1 fosmid}

block4165 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.603	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	4	15	3arm	1	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------UUGGGCU--------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------------------------------TTTGGGCTGATTTGTCGG----	18	1
celegans	ttttttaacaatgatgtttcaaaatgtttttatttggaagttaaattaaaaataccacTTTGGGCTGATTTGTCGGaaag
	********************************************************************************
celegans	.((((..((((....((.(((((.((((((((.((........)).))))))))....)))))))....))))..)))).	0.670 -10.40

celegans

chromosome:IV:4888151:4888230:-1

intergenic ## {SimpF: WRM0617aF03 -1 fosmid,WRM0641bG05 -1 fosmid,WRM0629bF04 -1 fosmid,WRM0631dA02 -1 fosmid,WRM061cE11 -1 fosmid,WRM0629bB01 -1 fosmid}

block4245 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.472	no	no	0.38/0.41	22/26/0.67	0.3	2.3	3	0	1	0	0	4	3arm	1	nd	0.48	4	3	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------UUGAUAU------------------	2	novel
seed	------------------------------------------UGAUAUG-----------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------------GTTGATATGCAGCCGTTATGTT----	22	1
	-----------------------------------------TTGATATGCAGCCGTTATGTTATC-	24	1
	----------------------------------------GTTGATATGCAGCCGTTATGTTATCA	26	1
celegans	tgaactcacctcggcgttatgaatttcagtcatttcgcttGTTGATATGCAGCCGTTATGTTATCA
	******************************************************************
	----------------------------------------------------------------------------	ZK616.1 ZK616.1 ZK616.1
celegans	.((...((...((((..(((.(((...(((......))).))).)))....))))...))...)).	0.440 -10.40

celegans

chromosome:IV:5405652:5405717:-1

Opposite_strand|Intronic_coding|ZK616.1|ZK616.1 ## ZK616.1|protein_coding|ZK616.1|ZK616.1 [Source:RefSeq_peptide;Acc:NP_500805] ## {SimpF: WRM0635cB02 -1 fosmid}

block5544 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.089	no	no	0.26/0.26	19/19/0.00	0.0	0.0	1	0	1	0	2	19	5arm	1	nd	0.37	4	1	1	na	na

		reads	miRBase family seed
seed	---AUAAUGU----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--TATAATGTTGCTTACTTTG-----------------------------------------------------------------	19	1
celegans	gtTATAATGTTGCTTACTTTGagttttcatcctttgtttctgctgatcgaaaattgaagtactcagatttgcggagcatgagaaca
	**************************************************************************************
	----------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	R13H7.2a R13H7.2 R13H7.2
	----------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	R13H7.2b R13H7.2 R13H7.2
	----------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	R13H7.2c R13H7.2 R13H7.2
celegans	(((...(((((((....((((((((((((...((((..((....)).))))...))))).)))))))...)))..))))...))).	0.950 -19.50

celegans

chromosome:IV:6849081:6849166:1

Opposite_strand|Boundary_coding|R13H7.2c|R13H7.2 ## R13H7.2|protein_coding|R13H7.2|R13H7.2a [Source:RefSeq_peptide;Acc:NP_741433] ## {SimpF: WRM0618cC12 1 fosmid,WRM0613bD04 1 fosmid,R13H7.2 1 Expression_profile}

block6595 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.326	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	2	28	5arm	2	nd	0.56	5	1	1	na	na

		reads	miRBase family seed
seed	---UUUUACG---------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--GTTTTACGCTGGCCACAA-----------------------------------------------------------------------------------------	18	1
celegans	aaGTTTTACGCTGGCCACAAaggaaacaaaatgtgtacgatcagaaggaccaaaagccttaaaatgtttacaagcgagttttccgcaggtaaaaaagctatattaactt
	*************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	F07B7.8 F07B7.8 F07B7.8
celegans	(((((....(((.(((.....(((((.......((((....((.((((........))))....))..)))).......)))))...))).....)))......)))))	0.710 -16.54

celegans

chromosome:V:8845759:8845867:-1

Same_strand|Intronic_coding|F07B7.8|F07B7.8 ## F07B7.8|protein_coding|F07B7.8|F07B7.8 [Source:RefSeq_peptide;Acc:NP_505274] ## {SimpF: WRM0615bG03 -1 fosmid,WRM0620bE07 -1 fosmid,WRM0632cD08 -1 fosmid,WRM0612bC01 -1 fosmid,WRM067aB04 -1 fosmid,WRM0615dE07 -1 fosmid,WRM0620cD11 -1 fosmid,WRM0615bD11 -1 fosmid,WRM0639aE12 -1 fosmid,WRM0618aE10 -1 fosmid,WRM0626cH02 -1 fosmid}

block6602 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.151	no	no	0.63/0.63	19/19/0.00	0.0	0.0	1	0	1	0	4	3	5arm	4	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	-----GGAAGUG-------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	----GGGAAGTGGCAGAGTGACC--------------------------------	19	1
celegans	atggGGGAAGTGGCAGAGTGACCaagaaaaactatgcactttgtacattcggcat
	*******************************************************
celegans	......(((...((((((((....((.....))...))))))))...))).....	1.000 -12.00

celegans

chromosome:V:8853485:8853539:-1

intergenic ## {SimpF: WRM0611cD09 -1 fosmid,WRM0632cD08 -1 fosmid,WRM0639cH11 -1 fosmid,WRM0612bC01 -1 fosmid,WRM0632aF08 -1 fosmid,WRM067aB04 -1 fosmid,WRM0620cD11 -1 fosmid,WRM0628dF12 -1 fosmid,WRM0615bD11 -1 fosmid,WRM0626cH02 -1 fosmid}

block6605 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

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	0.326	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	2	28	5arm	2	nd	0.56	5	1	1	na	na

		reads	miRBase family seed
seed	---UUUUACG---------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--GTTTTACGCTGGCCACAA-----------------------------------------------------------------------------------------	18	1
celegans	aaGTTTTACGCTGGCCACAAaggaaacaaaatgtgtacgatcagaaggaccaaaagccttaaaatgtttacaagcgagttttccgcaggtaaaaaagctatattaactt
	*************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	K06C4.1 K06C4.1 K06C4.1
celegans	(((((....(((.(((.....(((((.......((((....((.((((........))))....))..)))).......)))))...))).....)))......)))))	0.710 -16.54

celegans

chromosome:V:8887854:8887962:-1

Same_strand|Intronic_coding|K06C4.1|K06C4.1 ## K06C4.1|protein_coding|K06C4.1|K06C4.1 [Source:RefSeq_peptide;Acc:NP_505290] ## {SimpF: WRM0627bB06 -1 fosmid,WRM0611cD09 -1 fosmid,WRM0638aA04 -1 fosmid,WRM0625aH11 -1 fosmid,WRM0632cD08 -1 fosmid,WRM0614bC01 -1 fosmid,WRM0620dF01 -1 fosmid,WRM0632aF08 -1 fosmid,WRM0628bC09 -1 fosmid,WRM0636aD03 -1 fosmid,WRM0630cG07 -1 fosmid,WRM0627cF05 -1 fosmid,WRM0626cG01 -1 fosmid,WRM064dE05 -1 fosmid,WRM063bH07 -1 fosmid,WRM068aG12 -1 fosmid,WRM0614aB05 -1 fosmid}

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miR-Intess™

block861 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block1547 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block3334 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block3784 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block4165 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block4245 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block5544 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block6595 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block6602 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]

block6605 [novel_lenNOK_shortStem_nonpairedHIGH_bulgeHIGH]