miR-Intess: classification

other hairpins

block4699 [novel_shortStem_nonpairedHIGH]

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	0.111	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	0	5	3arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------GCACUCC------------	1	novel
		len	cloning frequencies
			CE1
	------------------------------------TGCACTCCAGCCAGACTTGG	20	1
celegans	taagttttaatgaatggacgttgaatagtattttaaTGCACTCCAGCCAGACTTGG
	********************************************************
celegans	((((((....((..(((((((((((......)))))))...))))..)))))))).	1.000 -11.40

celegans

chromosome:IV:13710227:13710282:-1

intergenic ## {SimpF: WRM0625dB04 -1 fosmid,WRM0638cF05 -1 fosmid,WRM0636cA04 -1 fosmid,WRM068cF11 -1 fosmid,WRM0636bD09 -1 fosmid}

block4828 [novel_shortStem_nonpairedHIGH]

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	0.967	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	1	23	5arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	--AUUUUCU---------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-TATTTTCTTTATCATCCGCGC--------------------------------------------------------------------------------------------	21	1
celegans	tTATTTTCTTTATCATCCGCGCtcatcaaaattcaaaatacaagatagttttacagtattcattttttttaatttgaagattccacagttatcggagaaatttacagttaatga
	******************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------	Y57G11C.49 Y57G11C.49 lgc-8
celegans	(((((..((.((...((((.(((........((((((.((.((((...................)))).)).))))))........)))...))))......)).))..)))))	0.800 -9.50

celegans

chromosome:IV:14719088:14719201:-1

Opposite_strand|Intronic_coding|Y57G11C.49|Y57G11C.49 ## Y57G11C.49|protein_coding|lgc-8|Y57G11C.49 [Source:RefSeq_peptide;Acc:NP_001023533] ## {SimpF: WRM0620bA12 -1 fosmid}

block5430 [novel_shortStem_nonpairedHIGH]

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	0.254	no	no	0.36/0.36	22/22/1.00	0.0	0.0	2	0	1	0	3	7	5arm	1	nd	0.32	3	2	1	na	na

		reads	miRBase family seed
seed	----GGAUAAC------------------------------------------------------------	2	novel
		len	cloning frequencies
			CE1
	---AGGATAACAGCTTAGATTCAGT----------------------------------------------	22	2
celegans	tcaAGGATAACAGCTTAGATTCAGTctctcaagaaattgattgtctaactgagcaagcatgattcatttgg
	***********************************************************************
	...............................................................>>>>>>>>>>>>>>>>>>	F36H12.5 F36H12.5 F36H12.5
celegans	.((((((...((((((...((((((...((((....)))).......)))))).)))).))..)).)))).	0.910 -12.50

celegans

chromosome:IV:5266797:5266867:1

intergenic ## {SimpF: F36H12.5 1 Expression_profile,WRM0613dD04 1 fosmid}

block5499 [novel_shortStem_nonpairedHIGH]

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	0.709	no	no	0.50/0.50	22/22/1.00	0.0	0.0	1	0	1	0	4	7	3arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------AUAGUUC------------------	1	novel
		len	cloning frequencies
			CE1
	-----------------------------------------------GATAGTTCAGCTGTGAGTGTGC----	22	1
celegans	attgtcgctagctcgtctttttgtctttatacctgatagtggtctcgGATAGTTCAGCTGTGAGTGTGCcaat
	*************************************************************************
celegans	((((.(((..(((((.((..((((((....(((.......)))...))))))...))...)))))))).))))	0.940 -12.90

celegans

chromosome:IV:6011493:6011565:1

intergenic ## {SimpF: WRM0614cH07 1 fosmid,WRM0628aC03 1 fosmid,WRM0610bD01 1 fosmid,WRM0626aE06 1 fosmid,WRM0615cA11 1 fosmid,WRM0615bA12 1 fosmid,WRM0639aA06 1 fosmid,WRM0639dC06 1 fosmid,WRM0637aD02 1 fosmid}

block5898 [novel_shortStem_nonpairedHIGH]

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	0.056	no	no	0.20/0.20	20/20/1.00	0.0	0.0	1	0	1	0	0	9	3arm	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------UUUAUUA------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------------TTTTATTAAAAGCAGAAACT	20	1
celegans	gtttcacagtctttgtttaatttgtagaacattatgtttcacatTTTTATTAAAAGCAGAAACT
	****************************************************************
	--------------------------------------------------------------------------	R05A10.3 R05A10.3 R05A10.3
celegans	(((((...((.((((...((..(((..(((.....)))..)))..))...)))).)).))))).	0.980 -10.40

celegans

chromosome:IV:14174815:14174878:1

Opposite_strand|Intronic_coding|R05A10.3|R05A10.3 ## R05A10.3|protein_coding|R05A10.3|R05A10.3 [Source:RefSeq_peptide;Acc:NP_502719] ## {SimpF: WRM0626cF11 1 fosmid,WRM0626aC09 1 fosmid,yk364e1 1 RNAi}

block6054 [novel_shortStem_nonpairedHIGH]

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	0.166	no	no	0.33/0.33	21/21/1.00	0.0	0.0	1	0	1	0	2	25	5arm	1	nd	0.43	3	1	1	na	na

		reads	miRBase family seed
seed	---AUUGUGA------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--CATTGTGATGAATGAAGTAGT-----------------------------------------------------------------------------	21	1
celegans	tcCATTGTGATGAATGAAGTAGTacttgattagaataaagaagttgctcgaaaagaatttttgtaaagttctgataatttttactgtttctaaacgttgg
	****************************************************************************************************
	>>............................................................................................................	Y73F8A.15 Y73F8A.15 Y73F8A.15
celegans	.(((.(((...(((...(((((......((((((((..(((((((.((.....))))))))).....)))))))).....)))))..)))...))).)))	0.980 -18.60

celegans

chromosome:IV:15322145:15322244:1

intergenic ## {SimpF: Y73F8A.N 1 Expression_profile}

block6593 [novel_shortStem_nonpairedHIGH]

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	0.112	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	0	38	3arm	4	nd	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------------UAUGAGC------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------------------------------------------------------------------GTATGAGCTGGAGCACCGAG	20	1
celegans	ttcgagctgctcacgtttcccttggagtaccccttgtgtagttgtctggatcctttgatcaagcggctgctgtagacgagtagtaccaccattgGTATGAGCTGGAGCACCGAG
	******************************************************************************************************************
celegans	.(((...(((((..((((((..(((.((((..((((((((((((.((.((((....)))).))))))))).....)))))..))))..)))..))...))))..))))).))).	1.000 -36.80

celegans

chromosome:V:8838263:8838376:-1

intergenic ## {SimpF: WRM067dE11 -1 fosmid,WRM0615bG03 -1 fosmid,WRM0620bE07 -1 fosmid,oe = 1.14 0 CpG,WRM0612bC01 -1 fosmid,WRM067aB04 -1 fosmid,WRM0615dE07 -1 fosmid,WRM0620cD11 -1 fosmid,WRM0615bD11 -1 fosmid,WRM0639aE12 -1 fosmid,WRM0618aE10 -1 fosmid,WRM0626cH02 -1 fosmid}

block6603 [novel_shortStem_nonpairedHIGH]

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	0.112	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	0	38	3arm	4	nd	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------------UAUGAGC------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------------------------------------------------------------------GTATGAGCTGGAGCACCGAG	20	1
celegans	ttcgagctgctcacgtttcccttggagtaccccttgtgtagttgtctggatcctttgatcaagcggctgctgtagacgagtagtaccaccattgGTATGAGCTGGAGCACCGAG
	******************************************************************************************************************
celegans	.(((...(((((..((((((..(((.((((..((((((((((((.((.((((....)))).))))))))).....)))))..))))..)))..))...))))..))))).))).	1.000 -36.80

celegans

chromosome:V:8880357:8880470:-1

intergenic ## {SimpF: WRM0615aE12 -1 fosmid,WRM0627bB06 -1 fosmid,WRM0611cD09 -1 fosmid,oe = 1.14 0 CpG,WRM0638aA04 -1 fosmid,WRM0625aH11 -1 fosmid,WRM0632cD08 -1 fosmid,WRM0614bC01 -1 fosmid,WRM0639cH11 -1 fosmid,WRM0620dF01 -1 fosmid,WRM0632aF08 -1 fosmid,WRM0636aD03 -1 fosmid,WRM0630cG07 -1 fosmid,WRM0627cF05 -1 fosmid,WRM0628dF12 -1 fosmid,WRM0615bD11 -1 fosmid,WRM063bH07 -1 fosmid,WRM068aG12 -1 fosmid,W09B7.D -1 Expression_profile,WRM0614aB05 -1 fosmid}

block7617 [novel_shortStem_nonpairedHIGH]

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	0.682	no	no	0.27/0.27	22/22/1.00	0.0	0.0	1	0	1	0	3	29	5arm	1	nd	0.36	3	1	1	na	na

		reads	miRBase family seed
seed	----UUCUUUG-------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	---GTTCTTTGCGATTTTAACATAT-----------------------------------------------------------------------------------	22	1
celegans	tttGTTCTTTGCGATTTTAACATATtatatggtatttgttttgtatgcattagtgaagaaccgatcgatatgacgagtagaaaatgttgaaccggagtgggggtcaaa
	************************************************************************************************************
celegans	.(((..((..((...((((((((.((......((((((((.(((.((.((..((.....))..))))))).)))))))).)).)))))))).....))..))..))).	0.510 -18.70

celegans

chromosome:X:1208123:1208230:-1

intergenic ## {SimpF: WRM0618bB08 -1 fosmid,WRM0631bF01 1 fosmid,WRM0628aH03 -1 fosmid,WRM0629aA11 -1 fosmid,WRM0635cD01 -1 fosmid,WRM0639cB04 -1 fosmid,WRM0617dC12 -1 fosmid,WRM068aG07 -1 fosmid,WRM0621bD10 1 fosmid}

block8141 [novel_shortStem_nonpairedHIGH]

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	0.102	no	no	0.62/0.62	24/24/1.00	0.0	0.0	1	0	1	0	2	16	5arm	2	nd	0.38	3	1	1	na	na

		reads	miRBase family seed
seed	---UUUGGCC-----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--GTTTGGCCAAGCGGACTGGAGCAC-------------------------------------------------------------	24	1
celegans	caGTTTGGCCAAGCGGACTGGAGCACattggaaaaaataattggaaaagattagagatgaggaaagcaaaagccgtggtcgatgctg
	***************************************************************************************
celegans	((((((((((..((((.((...((.............(((((......)))))............))...)))))))))))).))))	0.410 -18.31

celegans

chromosome:X:1011750:1011836:1

intergenic ## {SimpF: WRM0636dA04 -1 fosmid,WRM0625cH06 1 fosmid,WRM0621dF04 -1 fosmid,WRM0621bD10 -1 fosmid,WRM0631cA02 -1 fosmid,WRM0625aB08 -1 fosmid,WRM0627dH08 -1 fosmid,WRM0631bF01 -1 fosmid,WRM0625aG07 1 fosmid}

Page 26

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Page 45

miR-Intess™

block4699 [novel_shortStem_nonpairedHIGH]

block4828 [novel_shortStem_nonpairedHIGH]

block5430 [novel_shortStem_nonpairedHIGH]

block5499 [novel_shortStem_nonpairedHIGH]

block5898 [novel_shortStem_nonpairedHIGH]

block6054 [novel_shortStem_nonpairedHIGH]

block6593 [novel_shortStem_nonpairedHIGH]

block6603 [novel_shortStem_nonpairedHIGH]

block7617 [novel_shortStem_nonpairedHIGH]

block8141 [novel_shortStem_nonpairedHIGH]