miR-Intess: classification

other hairpins

block8183 [novel_lenNOK]

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	0.876	no	no	0.42/0.43	19/21/0.50	0.0	1.0	2	0	1	0	15	20	5arm	1	nd	0.26	1	2	1	na	na

		reads	miRBase family seed
seed	----------------AAUGAGU---------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			CE1
	---------------GAATGAGTTGTTGTCCAGTAG--------------------------------------------------------------------------	21	1
	---------------GAATGAGTTGTTGTCCAGT----------------------------------------------------------------------------	19	1
celegans	ttttgatgattttagGAATGAGTTGTTGTCCAGTAGagcaattagacatcgagaacgaaatgagtagacgagtataaattggcggggggtcgtggggatcgaaccagaga
	**************************************************************************************************************
celegans	(((((.(((((((....((((.((.(((.(((((.......(((.((.(((...((.......))...))))).))))))))))).)).)))).)))))))...))))).	0.440 -17.61

celegans

chromosome:X:1982763:1982872:1

intergenic ## {SimpF: WRM067dE01 1 fosmid,WRM0615cH04 1 fosmid}

novel_nonpairedHIGH (27 loci)

block477 [novel_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	0.171	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	9	15	3arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------ACCGAGG----------------------	1	novel
		len	cloning frequencies
			CE1
	------------------------------------------------------------------AACCGAGGCAGACAGTATCTG---------	21	1
celegans	ttgaatgttagctgtcacaataattcccttgttttcagcattaatgaatttcatcgatagctcatcAACCGAGGCAGACAGTATCTGaaatttaaa
	************************************************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<-----------------	F25H2.8.2 F25H2.8 ubc-25
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<-----------------	F25H2.8.1 F25H2.8 ubc-25
celegans	((((((.(((((((((..........(((((.....(((((..(((.....)))..)).))).......)))))..)))))...)))).)))))).	0.720 -16.90

celegans

chromosome:I:10563088:10563183:-1

Opposite_strand|Boundary_coding|F25H2.8.1|F25H2.8 ## F25H2.8|protein_coding|ubc-25|UBiquitin Conjugating enzyme family member (ubc-25) [Source:RefSeq_peptide;Acc:NP_492764] ## {SimpF: WRM066dG06 -1 fosmid,WRM067bB09 -1 fosmid,WRM0625bF11 -1 fosmid}

block1220 [novel_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	0.629	no	no	0.33/0.33	24/24/1.00	0.0	0.0	1	0	1	0	20	1	3arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------UGACACG------------------------------------	1	novel
		len	cloning frequencies
			CE1
	------------------------------------------------------TTGACACGATTGCCATAAATTTCA--------------------	24	1
celegans	aggagaaaaatgtttaaaatcaaaactatggtattaatttttgttcacttgttgTTGACACGATTGCCATAAATTTCAatttttaattaaaatgcttt
	**************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...............................................................	Y18D10A.25 Y18D10A.25 fkb-8
celegans	.((((........((((((..(((..(((((((.....((.((((.((.....)).)))).)).)))))))..)))....))))))........))))	0.800 -11.59

celegans

chromosome:I:12918013:12918110:1

intergenic

block1369 [novel_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	0.147	no	no	0.41/0.41	22/22/1.00	0.0	0.0	1	0	1	0	16	13	3arm	2	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------UUGACGA------------------------------	1	novel
		len	cloning frequencies
			CE1
	-------------------------------------------------------------------------------GTTGACGATAGTCTTGATGATC----------------	22	1
celegans	gtcgtctcaacacaaccgctatgtgtctcctggtggctatatgcgtctaggcttcttcttctttgcggagaggaagttaGTTGACGATAGTCTTGATGATCgtggttcggtttcggc
	*********************************************************************************************************************
celegans	((((....(((..((((((....((((.......((((((...((((..((((((((((((.....))))))))))))....))))))))))..))))...))))))..))).))))	0.850 -35.20

celegans

chromosome:I:15064050:15064166:1

intergenic ## {SimpF: WRM066aE11 1 fosmid,WRM068cA11 1 fosmid,WRM067aB07 1 fosmid,WRM0628aC12 1 fosmid,WRM0625cG10 1 fosmid,WRM0619bG03 1 fosmid,WRM0629dE08 1 fosmid,WRM0637dE09 1 fosmid,WRM0623dH11 1 fosmid,WRM0631aD12 1 fosmid,WRM0640bG08 1 fosmid,WRM0626cH01 1 fosmid,WRM066cF11 1 fosmid,WRM0615cH09 1 fosmid}

block1730 [novel_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	0.203	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	21	2	3arm	1	nd	0.38	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------CAUCAUA----------------------------------	1	novel
		len	cloning frequencies
			CE1
	-------------------------------------------CCATCATAGCTGACGTACAAG---------------------	21	1
celegans	tgtgtgaacgtttaattggtcagttggaaagattttaacttgtCCATCATAGCTGACGTACAAGaaaacaattgttctttctacg
	*************************************************************************************
celegans	.(((.((((((((..(((((((((((((..(((........)))..)).))))))))...)))..))))....))))....))).	0.710 -16.50

celegans

chromosome:II:6342843:6342927:-1

intergenic ## {SimpF: WRM0617aE11 -1 fosmid,WRM0611bE09 -1 fosmid,WRM0632aH03 -1 fosmid,WRM0628aA10 -1 fosmid,WRM0615bE03 -1 fosmid,WRM068aG10 -1 fosmid,WRM0629dA05 -1 fosmid}

block1844 [novel_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	0.192	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	20	0	5arm	1	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------GAGGAGA--------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------GGAGGAGAGTGAAGATTAAC--------------------------------------------------------	20	1
celegans	ggatatgggggggggggggtGGAGGAGAGTGAAGATTAACaaataaattatcagttaattattacacaagccagaaaacttataacaatcatattt
	************************************************************************************************
celegans	.(((((((........((((...((...((((.(((((((.............))))))).)))).....)).....)))).......))))))).	1.000 -13.98

celegans

chromosome:II:9100456:9100551:-1

intergenic ## {SimpF: WRM0640dG09 -1 fosmid,WRM0631bE12 -1 fosmid,WRM0630aC03 -1 fosmid,WRM0637bB02 -1 fosmid}

block3608 [novel_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	0.017	no	no	0.30/0.30	20/20/1.00	0.0	0.0	1	0	1	0	9	18	3arm	1	6	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------UUCAAGG---------------------	1	novel
		len	cloning frequencies
			CE1
	-------------------------------------------------------------------------CTTCAAGGTTTTCAGTTTTT---------	20	1
celegans	gacaaaaactttgagctgctgctttgactatagtttgcgaaattggtttttttcttcaattttgaaatatgttCTTCAAGGTTTTCAGTTTTTcttttatca
	******************************************************************************************************
	..........................................................................>>>>>>>>>>>+++++++++++++++++++++++++++	R02F2.4 R02F2.4 R02F2.4
celegans	((.((((.....((((((..(((((((..(((.....(((((((((.........))))))))).....)))...)))))))...))))))...)))).)).	0.990 -21.20

celegans

chromosome:III:5484089:5484190:1

Same_strand|Boundary_non-coding|R02F2.4|R02F2.4 ## R02F2.4|protein_coding|R02F2.4|R02F2.4 encodes a protein with six chitin-binding peritrophin-A domains. R02F2.4 transcripts are enriched during oogenesis. like CEJ-1 and CPG-2, R02F2.4 might participate in eggshell synthesis and early embryonic development, and R02F2.4's multiple peritrophin-A domains might enable mechanical cross-linking of chitin. however, R02F2.4 has no obvious function in mass RNAi assays. while R02F2.4 is more closely similar to CPG-2 than CEJ-1, it may be less strongly expressed (since it has substantially fewer ESTs) and thus be less important in development. [Source: WormBase] ## {Repeats: dust 15562 15582 0 class=dust} ## {SimpF: WRM0625cD07 1 fosmid,WRM061bH05 1 fosmid,WRM0618cB07 1 fosmid,WRM0640aD08 1 fosmid,WRM0621aE01 1 fosmid,WRM0626dF12 1 fosmid,WRM064dF01 1 fosmid}

block3868 [novel_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	0.546	no	no	0.35/0.35	20/20/1.00	0.0	0.0	1	0	1	0	6	22	3arm	1	nd	0.40	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------CUAAUAG------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------------------------------------------------GCTAATAGAGAAATGAATCC------	20	1
celegans	cagaaactcacttttccttctttgatcgcttgaatttcttccatactgattctgatcacgaaatcgattggaactgatttGCTAATAGAGAAATGAATCCttttgg
	**********************************************************************************************************
	----------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<...................................................................	W05B2.3 W05B2.3 W05B2.3
celegans	(((((.......(((..(((((((...((..(((((..(((((...(((((.((....)).)))))..)))))..)))))))...)))))))..)))...))))).	0.630 -16.30

celegans

chromosome:III:10969311:10969416:1

intergenic ## {SimpF: WRM0627aB04 1 fosmid,WRM0624dH06 1 fosmid,WRM0640cF08 1 fosmid,WRM0639bE05 1 fosmid}

block3954 [novel_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	0.606	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	6	20	5arm	4	nd	0.35	2	1	1	na	na

		reads	miRBase family seed
seed	-------UAUGAGC------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	------GTATGAGCTGGAGCACCGAG------------------------------------------------------------------------	20	1
celegans	ccattgGTATGAGCTGGAGCACCGAGttgttgaccatgttgaccatgtagatggtaagcggcagcggatgacatcggagcagtggcagatgacggcgg
	**************************************************************************************************
celegans	((.(((.(((..((((..((.((((..(((((.((.((((((((((....)))))...)))))..)).))))))))).))..))))..))).))).))	0.920 -27.60

celegans

chromosome:III:13236203:13236300:1

intergenic ## {SimpF: WRM066cD02 1 fosmid,WRM064bH07 1 fosmid,WRM0621dD01 1 fosmid,Y43F4A.2 1 Expression_profile,WRM0620dB10 1 fosmid}

block4118 [novel_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	0.044	no	no	0.71/0.71	21/21/1.00	0.0	0.0	1	0	1	0	7	6	3arm	2	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------AUGACGU--------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------------------GATGACGTCGACGGCTCGGGC-------	21	1
celegans	gaaggatcttcgccttctccacatcgacgggcttcgcgtcttttggctccGATGACGTCGACGGCTCGGGCtccttct
	******************************************************************************
celegans	((((((.....((((...((...((((((....(((.(((....)))..)))...)))))).))...)))))))))).	0.650 -27.30