miR-Intess: classification

other hairpins

novel_loopOverlap_nonpairedHIGH_bulgeHIGH (18 loci)

block807 [novel_loopOverlap_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	0.321	no	no	0.64/0.64	22/22/1.00	0.0	0.0	1	0	1	0	26	-3	5arm_loop	1	21	0.41	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------GCUCUCG--------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------GGCTCTCGCAGCACAAGGAGAC------------------------------------------------	22	1
celegans	atgaaaattccaaactaatgcttacaGGCTCTCGCAGCACAAGGAGACgatccggtggttgatgagcagaatccgatagttgctggatatttggca
	************************************************************************************************
	++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	C43E11.1 C43E11.1 cogc-5
celegans	.((.(((((((((((((.((.......((((...((((.((.(((.....)))..))))))..))))......)).)))))..)))).))))..))	0.760 -22.92

celegans

chromosome:I:4270895:4270990:1

Same_strand|Boundary_coding|C43E11.1|C43E11.1 ## C43E11.1|protein_coding|cogc-5|cogc-5 encodes an ortholog of mammalian COG-5, a subunit of lobe B of the conserved oligomeric Golgi complex (COGC). COGC-5 is also orthologous to Drosophila FOUR WAY STOP (required for fly spermatogenesis). COGC-5 is weakly required for normal gonadal distal tip cell migration, a process that also requires seven other orthologs of COGC subunits. like other lobe B subunits in both C. elegans and S. cerevisiae, COGC-5 is only partially required for normal function, while lobe A subunits are strongly required in either worms or yeast. [Source: WormBase] ## {SimpF: WRM0620aB02 1 fosmid,WRM0628aB01 1 fosmid,WRM0623bE09 1 fosmid,yk319b10 1 RNAi,WRM0611bC04 1 fosmid}

block911 [novel_loopOverlap_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	0.352	no	no	0.33/0.33	24/24/1.00	0.0	0.0	1	0	1	0	16	-1	5arm_loop	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------UCUUUGA----------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	----------------GTCTTTGATTGACAAGATATTTGG------------------------------------------------	24	1
celegans	cgtggcatgtgcttgaGTCTTTGATTGACAAGATATTTGGtgatacagatatgaagaatcatcatgataattgcaaaaatgagcccga
	****************************************************************************************
celegans	((.(((...(((....(((..(((.(((....(((((((......)))))))......)))))).)))....))).......))))).	0.580 -16.50

celegans

chromosome:I:6145045:6145132:1

intergenic ## {SimpF: F56F4.7 1 Expression_profile,WRM0611dF11 1 fosmid,WRM0613cG12 1 fosmid,WRM0628dG06 1 fosmid,WRM0621bH03 1 fosmid,WRM065bH05 1 fosmid,WRM068cH02 1 fosmid,WRM0624dG10 1 fosmid}

block970 [novel_loopOverlap_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	0.383	no	no	0.29/0.29	24/24/1.00	0.0	0.0	1	0	1	0	29	-4	3arm_loop	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------UUCGAAU---------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	------------------------------------------------------CTTCGAATATATGTGTTTCAAACT-----------------------------	24	1
celegans	ggtattttagtatttccttcatttttggttaaaaataatagttgttcaaaatgtCTTCGAATATATGTGTTTCAAACTaatgcactacatgaaataatcaacgacca
	***********************************************************************************************************
celegans	(((.......((((((........((((((..(((((.....(((((...........)))))....)))))..))))))..........)))))).......))).	0.880 -14.71

celegans

chromosome:I:7115293:7115399:1

intergenic ## {SimpF: WRM0613dH10 1 fosmid,WRM0619bH05 1 fosmid,WRM0624dB12 1 fosmid,WRM0620bA10 1 fosmid,WRM0641dF02 1 fosmid,WRM0616cE06 1 fosmid,WRM0627dF04 1 fosmid}

block1702 [novel_loopOverlap_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	0.116	no	no	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	10	-3	5arm_loop	1	nd	0.40	4	1	1	na	na

		reads	miRBase family seed
seed	-----------AUGAAAA----------------------------------------	1	novel
		len	cloning frequencies
			CE1
	----------GATGAAAAGCATTGAAGACG----------------------------	20	1
celegans	agaagaagacGATGAAAAGCATTGAAGACGtcttttgttgattggtggttctacttct
	**********************************************************
celegans	(((((.((((.((.((.((((..((((....))))))))..)).)).)).)).)))))	0.990 -12.20

celegans

chromosome:II:5758603:5758660:-1

intergenic ## {SimpF: WRM0634cF07 -1 fosmid,WRM067aH11 -1 fosmid,WRM0612bF07 -1 fosmid,F10C1.3 -1 Expression_profile,WRM0639cA03 -1 fosmid,WRM0611aA03 -1 fosmid}

block1714 [novel_loopOverlap_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	0.709	no	no	0.46/0.46	24/24/1.00	0.0	0.0	1	0	1	0	21	-3	5arm_loop	1	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	----------------------AGCCGUU------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	---------------------CAGCCGTTAGGAATGCATCATGAT--------------------------------------------------------------	24	1
celegans	gcaagctcggtgggaacagatCAGCCGTTAGGAATGCATCATGATaatcacaaaagtgctagctgattctgactaatttgaatgtcgcgcggagatgaagttcttgc
	***********************************************************************************************************
celegans	((((((((.(((.((.((..((((..(((((((..((..(((.............)))...))...)))))))....)))).)))).))).)))........)))))	0.420 -22.82

celegans

chromosome:II:5867101:5867207:-1

intergenic ## {SimpF: WRM0627dH01 -1 fosmid,WRM0619cE01 -1 fosmid}

block2009 [novel_loopOverlap_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	0.407	no	no	0.32/0.32	22/22/1.00	0.0	0.0	1	0	1	0	7	-4	3arm_loop	1	nd	0.41	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------UAUGAGA---------------------	1	novel
		len	cloning frequencies
			CE1
	------------------------------GTATGAGACAGATTCATTTTGT-------	22	1
celegans	tgcctttttggaaaataaagcaatttctcaGTATGAGACAGATTCATTTTGTaaaagcg
	***********************************************************
celegans	.((..(((((.(((((.((......((((.....))))....)).))))).))))))).	0.860 -8.20

celegans

chromosome:II:13050680:13050738:-1

intergenic ## {SimpF: WRM0617bB03 -1 fosmid,WRM065aF11 -1 fosmid,WRM0626cB12 -1 fosmid,WRM0631aG09 -1 fosmid}

block2763 [novel_loopOverlap_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	0.091	no	no	0.57/0.57	21/21/1.00	0.0	0.0	2	0	1	0	32	-4	5arm_loop	4	nd	0.48	5	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------UGGUCAA---------------------------------------------------------------------	2	novel
		len	cloning frequencies
			CE1
	--------------------------------GTGGTCAATGTCGAAGAGGCG--------------------------------------------------------	21	2
celegans	aatggaaggatgaggtggtttagtggacgcttGTGGTCAATGTCGAAGAGGCGacggatctgtacgactctgaaaacatattgttatgaataatttcatttttgagttc
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	W05G11.2 W05G11.2 W05G11.2
celegans	(((..(((((((((((.(((((...((((..(((..(((..((((.(((.........)))...))))..)))..)))...)))).))))).)))))))))))..))).	0.990 -26.30

celegans

chromosome:III:57781:57889:-1

Opposite_strand|Intronic_coding|W05G11.2|W05G11.2 ## W05G11.2|protein_coding|W05G11.2|W05G11.2 [Source:RefSeq_peptide;Acc:NP_497132] ## {SimpF: W05G11.2 -1 Expression_profile}

block3096 [novel_loopOverlap_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	0.013	no	no	0.57/0.57	21/21/1.00	0.0	0.0	2	0	1	0	32	-3	5arm_loop	4	nd	0.38	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------UGGUCAA----------------------------------------------------------------------	2	novel
		len	cloning frequencies
			CE1
	--------------------------------GTGGTCAATGTCGAAGAGGCG---------------------------------------------------------	21	2
celegans	aatggaaggatgaggtggtttagcggacgcttGTGGTCAATGTCGAAGAGGCGacgactctgcacgactctgaaaacataaattgttatgaataacttcatttttgagtt
	**************************************************************************************************************
celegans	(((..(((((((((((.(((((...((((.(((((.(((..((((.((((.......))))...))))..)))...)))))..)))).))))).)))))))))))..)))	0.990 -32.20

celegans

chromosome:III:7715547:7715656:-1

intergenic ## {SimpF: WRM064cF06 -1 fosmid,WRM0632bB09 -1 fosmid,WRM0628dG03 -1 fosmid,WRM0619bD10 -1 fosmid,WRM0625bC10 -1 fosmid,WRM0628bG07 -1 fosmid,WRM064aA06 -1 fosmid,C03B8.2 -1 Expression_profile,WRM0611aC10 -1 fosmid,WRM0621bE11 -1 fosmid}

block3292 [novel_loopOverlap_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	0.398	no	no	0.25/0.25	24/24/1.00	0.0	0.0	1	0	1	0	24	-4	5arm_loop	1	nd	0.46	5	1	1	na	na

		reads	miRBase family seed
seed	-------------------------AUAUUGU----------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	------------------------GATATTGTTTTGATTGATTTGTTG------------------------------------	24	1
celegans	caatttccacatttttcaaaaaacGATATTGTTTTGATTGATTTGTTGgaaataagtggaggcggcgtggaaaaattcgagatt
	************************************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<...............................................	Y41C4A.18 Y41C4A.18 Y41C4A.18
celegans	.((((((...(((((((.....(((....((((((.(((.((((.....)))).))).)))))).))).)))))))..))))))	0.430 -14.40

celegans

chromosome:III:11730546:11730629:-1

block3662 [novel_loopOverlap_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	0.080	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	15	-2	3arm_loop	1	nd	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------AUGAGUG----------------------------	1	novel
		len	cloning frequencies
			CE1
	------------------------------------GATGAGTGAACCAAAATAGGT---------------	21	1
celegans	atgtagatgatctctccgcttgggtaactgaacagtGATGAGTGAACCAAAATAGGTagatcaaaatttata
	************************************************************************
celegans	.((((((((((((..((..((((...(((...((....)))))...))))....)).))))))...))))))	0.900 -15.40