miR-Intess: classification

other hairpins

novel_cloningOK_loopOverlap_nonpairedHIGH_bulgeHIGH (2 loci)

block7724 [novel_cloningOK_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	0.328	no	no	0.35/0.35	20/20/1.00	0.0	0.0	7	0	1	0	18	-2	5arm_loop	1	nd	0.60	4	7	1	na	na

		reads	miRBase family seed
seed	-------------------AACUUGC------------------------------------------	7	novel
		len	cloning frequencies
			CE1
	------------------TAACTTGCCTTGTTCGAAAT------------------------------	20	7
celegans	gcaatttatttttcccagTAACTTGCCTTGTTCGAAATatttcatactacaaaactggttgaatcgct
	********************************************************************
celegans	((.(((((......(((((...(((....((..(((....)))..))..))).))))).))))).)).	0.600 -8.10

celegans

chromosome:X:6345872:6345939:-1

intergenic ## {SimpF: WRM0629aF09 -1 fosmid,WRM0629cG05 -1 fosmid,WRM068cE03 -1 fosmid,WRM0621dA04 -1 fosmid,WRM063bF02 -1 fosmid}

novel_cloningOK_multiarm_DicerNOK (2 loci)

sblock16 [novel_cloningOK_multiarm_DicerNOK]

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	0.027	no	no	0.38/0.59	22/24/1.00	0.0 0.0 0.0	0.0 0.0 0.0	1 2 2	0 0 0	1 1 1	0 0 0	2 30 9	17 3 26	5arm 3arm 3arm	1 1 1	nd nd nd	0.12 0.33 0.41	2 4 5	5	1	-17	-17

		reads	miRBase family seed
seed	----------------------------------------------------------------------------AGGACAG-----------------------	2	novel
seed	-----------------------------------------------------AGACAUG----------------------------------------------	2	novel
seed	---UUGAGUU------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	---------------------------------------------------------------------------GAGGACAGCACGATCAGCCGTT---------	22	2
	----------------------------------------------------GAGACATGGTAGTATTTGGATTGG------------------------------	24	2
	--GTTGAGTTGATTGCTGTTCAATTG--------------------------------------------------------------------------------	24	1
celegans	taGTTGAGTTGATTGCTGTTCAATTGaaaattatctattctaaccatatttaGAGACATGGTAGTATTTGGATTGGAGGACAGCACGATCAGCCGTTaaaaactga
	**********************************************************************************************************
celegans	(((((..((((((((((((((((((.(((((((((..((((((......))))))....)))))).))).)))))...)))))))..)))))).......))))).	0.980 -26.40

celegans

chromosome:II:2615935:2616040:1

intergenic ## {SimpF: WRM0627bE01 1 fosmid,WRM0620bB07 1 fosmid}

sblock48 [novel_cloningOK_multiarm_DicerNOK]

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	0.039	no	no	0.33/0.43	21/25/0.80	0.0 0.0	1.3 0.0	3 2	0 0	1 1	0 0	6 25	15 0	5arm 3arm	1 1	nd nd	0.40 0.22	4 2	5	1	-15	-17

		reads	miRBase family seed
seed	-------AUUUCUU--------------------------------------------------------------------------------------	3	novel
seed	-----------------------------------------------------UUGAAAA----------------------------------------	2	novel
		len	cloning frequencies
			CE1
	------TATTTCTTCTTTGTAGAGGAG-------------------------------------------------------------------------	21	2
	----------------------------------------------------ATTGAAAATTGGTGTAGCACCGC-------------------------	23	2
	------TATTTCTTCTTTGTAGAGGAGGTCT---------------------------------------------------------------------	25	1
celegans	gtttatTATTTCTTCTTTGTAGAGGAGGTCTattacaattttttattattttATTGAAAATTGGTGTAGCACCGCtccacttttgaatttttaatgtaac
	****************************************************************************************************
celegans	((((((((....(((...((.(((..(((((((..((((((((.((......)).))))))))..)))).))).))).))....)))....))))).)))	0.680 -19.40

celegans

chromosome:MtDNA:3596:3695:1

intergenic

novel_cloningOK_nonpairedHIGH (2 loci)

block2128 [novel_cloningOK_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	0.765	no	no	0.52/0.52	23/23/1.00	0.0	0.0	5	0	1	0	10	21	5arm	1	nd	0.39	3	5	1	na	na

		reads	miRBase family seed
seed	-----------AUGAGUG---------------------------------------------------------------------------------------------	5	novel
		len	cloning frequencies
			CE1
	----------GATGAGTGGCAAGTGGAATGAGC------------------------------------------------------------------------------	23	5
celegans	aaacatccttGATGAGTGGCAAGTGGAATGAGCaaaaagagggtagctggacggagcactggttggttggttggttggttgaagggcagggcacttccaatggacgatgtt
	***************************************************************************************************************
celegans	.((((((.((.((...(((.(((((...((..(((..((.((.((((((..(((....)))..)))))).))..))..))).....))...)))))))))).)).))))))	0.510 -22.80

celegans

chromosome:II:842885:842995:1

intergenic ## {SimpF: WRM068cE11 1 fosmid,WRM0622dC12 1 fosmid,F28A10.9 1 Expression_profile,WRM0627cG11 1 fosmid,WRM062cB08 1 fosmid,WRM0638dH08 1 fosmid,WRM0629aG02 1 fosmid,WRM067dE12 1 fosmid,WRM0626dF08 1 fosmid,WRM066aC01 1 fosmid,WRM0636cH07 1 fosmid,WRM061aB10 1 fosmid}

block3092 [novel_cloningOK_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	0.509	no	no	0.36/0.40	22/25/0.83	0.7	1.8	6	0	1	0	5	20	5arm	1	nd	0.39	2	6	1	na	na

		reads	miRBase family seed
seed	------AGAAUUG----------------------------------------------------------------------------------------------------	4	novel
seed	--------AAUUGUU--------------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			CE1
	-----GAGAATTGTTTGAATACCAAGC--------------------------------------------------------------------------------------	22	2
	-------GAATTGTTTGAATACCAAGCGTC-----------------------------------------------------------------------------------	23	2
	-----GAGAATTGTTTGAATACCAAGCGTC-----------------------------------------------------------------------------------	25	1
	-----GAGAATTGTTTGAATACCAAGCGT------------------------------------------------------------------------------------	24	1
celegans	ttcttGAGAATTGTTTGAATACCAAGCGTCacacagctcaaatcggaaatgattgaatttttttttgaatttgtgaaatattgaaactgggagattttgaataaagataagag
	*****************************************************************************************************************
celegans	.(((((....(((((..((..((.((..((((((((.(((((..((((((......)))))).)))))..)))))......)))..)).))....))..)))))...))))).	0.920 -18.20

celegans

chromosome:III:7662128:7662240:-1

intergenic ## {SimpF: WRM0612dH07 -1 fosmid,WRM0623dA11 -1 fosmid,WRM064aE12 -1 fosmid,WRM061cG07 -1 fosmid,WRM0633bE08 -1 fosmid,WRM0635bC03 -1 fosmid,WRM0635cC06 -1 fosmid,WRM0620cB01 -1 fosmid,WRM0613dD12 -1 fosmid,WRM0622cC10 -1 fosmid,WRM067aF03 -1 fosmid,WRM0617bB04 -1 fosmid,WRM0613bE05 -1 fosmid,WRM069bE08 -1 fosmid}

novel_lenNOK_5varHIGH_nonpairedHIGH_bulgeHIGH (2 loci)

block1500 [novel_lenNOK_5varHIGH_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	0.057	no	no	0.42/0.47	19/24/0.50	1.5	1.0	2	0	1	0	22	3	5arm	3	nd	0.33	4	2	1	na	na

		reads	miRBase family seed
seed	--------------------------GGAAGUU----------------------------------------------------------------------------------	1	novel
seed	-----------------------UUUGGAA-------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-------------------------TGGAAGTTTCGGTTGTTGC-----------------------------------------------------------------------	19	1
	----------------------CTTTGGAAGTTTCGGTTGTTGCAT---------------------------------------------------------------------	24	1
celegans	gtcgaggcgcttgagtctgaagCTTTGGAAGTTTCGGTTGTTGCATctctacttttgagatactaatgatgttgcggtattggtcttaggcttaggcttaggcttaggcttaggc
	*******************************************************************************************************************
celegans	(((.(((((((((((((((.(((((.(((....(((((..(((.(((((.......)))))..)))..))....)))......))).))))))))))))))))....)))).)))	0.420 -34.40

celegans

chromosome:I:15072169:15072283:1

intergenic

block3287 [novel_lenNOK_5varHIGH_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	0.490	no	no	0.30/0.35	20/26/0.50	4.0	1.0	2	0	1	0	6	13	3arm	2	nd	0.45	4	2	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------AUACCAA--------------------------	1	novel
seed	---------------------------------------------------------------------UUAUGAA------------------	1	novel
		len	cloning frequencies
			CE1
	------------------------------------------------------------GATACCAAGTTATGAATAACGCCAAT--------	26	1
	--------------------------------------------------------------------GTTATGAATAACGCCAATTT------	20	1
celegans	ttcttggcggcgccctctcgtttcttcttcttttctgacgtttgctgcatttgtcctattGATACCAAGTTATGAATAACGCCAATTTgaggaa
	**********************************************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.................................	Y66D12A.11 Y66D12A.11 Y66D12A.11
celegans	(((((((.((((.....((((..(((..((......((((..((...))..)))).....))....)))..))))....))))...))))))).	0.540 -14.80

celegans

chromosome:III:11563383:11563476:-1

novel_lenNOK_cloningOK_loopOverlap_nonpairedHIGH_bulgeHIGH (2 loci)

block76 [novel_lenNOK_cloningOK_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	0.137	no	no	0.36/0.36	25/28/0.00	0.0	0.0	6	0	1	0	25	-24	3arm	1	nd	0.46	8	7	1	na	na

		reads	miRBase family seed
seed	--------------------------AUCAAAG--------------------------------------	6	novel
seed	--------------------------------------AUCAGCC--------------------------	1	novel
		len	cloning frequencies
			CE1
	-------------------------GATCAAAGAATGGATCAGCCATTGTTTT------------------	28	6
	-------------------------------------GATCAGCCATTGTTTTCAGAATTTG---------	25	1
celegans	ggatcatttttgactgggacagttgGATCAAAGAATGGATCAGCCATTGTTTTcagaatttgagaattcct
	***********************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<.............................	Y71G12B.3 Y71G12B.3 Y71G12B.3
celegans	(((..((((((((((((((((((..((((........))))....))))))).)))...))))))))))).	0.890 -14.70

celegans

chromosome:I:1812932:1813002:-1

Opposite_strand|Boundary_non-coding|Y71G12B.3|Y71G12B.3 ## Y71G12B.3|protein_coding|Y71G12B.3|Y71G12B.3 [Source:RefSeq_peptide;Acc:NP_490899] ## {SimpF: WRM0635cF03 -1 fosmid}

block5402 [novel_lenNOK_cloningOK_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	0.289	no	no	0.46/0.46	24/26/0.20	0.0	0.0	4	0	1	0	20	-6	5arm_loop	1	nd	0.46	6	5	1	na	na

		reads	miRBase family seed
seed	---------------------CAAUGAG------------------------------------------------------	5	novel
		len	cloning frequencies
			CE1
	--------------------GCAATGAGTTGAGTTGTCTCTTGGCT------------------------------------	26	4
	--------------------GCAATGAGTTGAGTTGTCTCTTGG--------------------------------------	24	1
celegans	ttattggaaatatggcaaaaGCAATGAGTTGAGTTGTCTCTTGGCTgagtactggctcttcttgtgtcgatcttcttatggt
	**********************************************************************************
	................................................................................<<<<<<<<<<<<	C24D10.8 C24D10.8 nspd-6
celegans	((((.((((...(((((.(((.((.(((((.(((...(((......))).))))))))))))).)))))...)))).)))).	0.860 -17.70

celegans

chromosome:IV:5165426:5165507:1

intergenic ## {SimpF: WRM0633dC11 1 fosmid,C24D10.8 1 Expression_profile}

novel_lenNOK_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH (2 loci)

block6465 [novel_lenNOK_cloningOK_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	0.678	no	no	0.50/0.57	22/26/0.33	0.0	0.0	4	0	1	0	3	14	5arm	2	nd	0.38	4	6	1	na	na

		reads	miRBase family seed
seed	----CAUCGAC-------------------------------------------------------------------------------------	5	novel
seed	---CCAUCGA--------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	---CCATCGACACCAACTTGACCGTTGTT-------------------------------------------------------------------	26	4
	--CCCATCGACACCAACTTGACCGT-----------------------------------------------------------------------	23	1
	---CCATCGACACCAACTTGACCGT-----------------------------------------------------------------------	22	1
celegans	ttcCCATCGACACCAACTTGACCGTTGTTtttggttttttgaaacgagaattcaataaggatttaaaattggtttctgttagtttttttttggaaa
	************************************************************************************************
celegans	((((....((.((.(((..(((((..(((((..((((((((((.......)))))..)))))..))))))))))...))).)).)).....)))).	0.550 -13.80