miR-Intess: classification

other hairpins

block58 [novel]

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	0.073	no	no	0.70/0.70	20/20/1.00	0.0	0.0	1	0	1	0	18	13	3arm	1	nd	0.15	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------ACCACCA------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------------------AACCACCAGGCTGGGGCGAG------------------	20	1
cbriggsae	catctacaatattatttttcagtattggtcgtcaagctccggatgccgacacaaagtcggactcacggAACCACCAGGCTGGGGCGAGttcaatgtgttgtgaatg
	**********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_174569
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_174283
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_002035
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_177366
	--------------------------------------------------------------------------------------------------------------------	NM_001107428
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_053878
	--------------------------------------------------------------------------------------------------------------------	NM_008665
cbriggsae	(((.((((((((.((((((((((.(((((.((.....((((((..(((((.....)))))..)).)))))).)))))))))))..)))).....)))))))).)))	0.940 -31.50

cbriggsae

chromosome:chrI:2075475:2075580:-1

Same_strand|Intronic_non-coding|NM_174569|PABPN1 ## Opposite_strand|Intronic_non-coding|NM_001107428|Zfp612 ## Same_strand|Intronic_coding|NM_053878|Cplx2 ## Opposite_strand|Intronic_coding|NM_008665|Myt1 ## {Repeats: no}

block75 [novel]

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	0.113	no	no	0.46/0.46	24/24/1.00	0.0	0.0	1	0	1	0	20	0	3arm	2	nd	0.25	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------AUUCGGA------------------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------GATTCGGATTGGTTTTGGTACACC--------------------	24	1
cbriggsae	cggccattcttttttttttttttggttttcaggaaatgtggatcaaacGATTCGGATTGGTTTTGGTACACCgattaaggagaaatgttgtc
	********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_177366
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001069244
	------------------------------------------------------------------------------------------------------	NM_058481
	------------------------------------------------------------------------------------------------------	NM_014920
	------------------------------------------------------------------------------------------------------	NM_016513
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_059707
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_010301
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_008139
cbriggsae	.(((.((...(((((((((..(((((..(((((((((.((((((....)))))).)))..))))))...)))))..))))))))).)).)))	0.990 -21.50

cbriggsae

chromosome:chrI:2324504:2324595:-1

Same_strand|Intronic_non-coding|NM_177366|Gpr157 ## Opposite_strand|Intronic_non-coding|NM_058481|ubc-3 ## {Repeats: no}

block106 [novel]

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	0.014	no	no	0.52/0.52	21/21/1.00	0.0	0.0	2	0	1	0	15	0	3arm	1	nd	0.14	2	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------UUCCAGG----------------------------	2	novel
		len	cloning frequencies
			AF16
	--------------------------------------------GTTCCAGGTTTGAAGCATGCG---------------	21	2
cbriggsae	cacaggagacgttagttgtaagctccagaacctttcggaatgtaGTTCCAGGTTTGAAGCATGCGacacggatcaaatgt
	********************************************************************************
	------------------------------------------------------------------------------------------	NM_020367
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_011821
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001079844
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_134696
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_203923
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001086021
	------------------------------------------------------------------------------------------	NM_001052684
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001062761
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001069064
	------------------------------------------------------------------------------------------	NM_001006185
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_102566
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_113830
	------------------------------------------------------------------------------------------	NM_001023814
	------------------------------------------------------------------------------------------	NM_057433
	------------------------------------------------------------------------------------------	NM_001022024
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_102559
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001019816
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_116080
	------------------------------------------------------------------------------------------	NM_125613
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_124024
cbriggsae	.(((.((..(((..((((((.(((...((((((...(((((...)))))))))))..))).)))))))))..))...)))	1.000 -25.80

cbriggsae

chromosome:chrI:4447942:4448021:-1

Opposite_strand|Intronic_non-coding|NM_020367|PARP11 ## Same_strand|Intronic_non-coding|NM_011821|Gpc6 ## Same_strand|Intronic_coding|NM_134696|CG2839 ## Opposite_strand|Intronic_coding|NM_001006185|DDX55 ## {Repeats: no}

block184 [novel]

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	0.073	no	no	0.25/0.25	20/20/1.00	0.0	0.0	1	0	1	0	15	22	3arm	1	nd	0.25	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------AAUGCCU---------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------------------------------TAATGCCTAAATTTTAGAAG---------------	20	1
cbriggsae	ggtactgtaatttttcgaaatttttccgtttcacaatattcatataggagtatgatggaggtgaatgatgtTAATGCCTAAATTTTAGAAGattttgcagatgctt
	**********************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------	NM_001106587
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061648
	--------------------------------------------------------------------------------------------------------------------	NM_060440
cbriggsae	((((((((((.((((((((((((...((((((((.....((((((....)))))).....)))))........)))...))))))).)))))..)))))).)))).	0.650 -22.80

cbriggsae

chromosome:chrI:9005703:9005808:-1

Opposite_strand|Intronic_non-coding|NM_001106587|Tnpo3 ## Same_strand|Intronic_coding|NM_061648|sdz-18 ## Opposite_strand|Intronic_coding|NM_060440|srt-62 ## {Repeats: no}

block271 [novel]

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	0.994	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	10	3	5arm	1	nd	0.20	1	1	1	na	na

		reads	miRBase family seed
seed	-----------AUGAUGU-----------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------AATGATGTAGGCGAGACACG-----------------------------------------------	20	1
cbriggsae	gagaatgagcAATGATGTAGGCGAGACACGagacccattccgtgtgaatttcctctgatgatgacgagttgattatc
	*****************************************************************************
	---------------------------------------------------------------------------------------	NM_068079
	---------------------------------------------------------------------------------------	NM_002073
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067597
cbriggsae	((.(((.(((.((.((.((((.((((((((.((.....)))))))....))).)))))).)).....))).))).))	0.470 -10.00

cbriggsae

chromosome:chrI:1684293:1684369:1

Opposite_strand|Intronic_non-coding|NM_068079|ubc-1 ## Same_strand|Intronic_non-coding|NM_067597|Y55F3BR.6 ## {Repeats: no}

block277 [novel]

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	0.033	no	no	0.52/0.52	21/21/1.00	0.0	0.0	2	0	1	0	5	20	3arm	2	nd	0.19	2	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------AUGGAAG------------------	2	novel
		len	cloning frequencies
			AF16
	--------------------------------------------------------GATGGAAGCTGGTCGTCAGAT-----	21	2
cbriggsae	gacggtcttgggcgaccgtctcctgttgggacgaatgtaacaatgaaagatggaatGATGGAAGCTGGTCGTCAGATcgttg
	**********************************************************************************
	--------------------------------------------------------------------------------------------	NM_174569
	--------------------------------------------------------------------------------------------	NM_002035
	--------------------------------------------------------------------------------------------	NM_177366
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001107428
	--------------------------------------------------------------------------------------------	NM_053878
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_008665
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067597
cbriggsae	((((((((..(((((((((.(((.((((..((....))..))))...............))).)).))))))))))))))).	0.790 -26.59

cbriggsae

chromosome:chrI:2029231:2029312:1

Opposite_strand|Intronic_non-coding|NM_174569|PABPN1 ## Same_strand|Intronic_non-coding|NM_001107428|Zfp612 ## Opposite_strand|Intronic_coding|NM_053878|Cplx2 ## Same_strand|Intronic_coding|NM_008665|Myt1 ## {Repeats: no}

block280 [novel]

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	0.113	no	no	0.46/0.46	24/24/1.00	0.0	0.0	1	0	1	0	20	0	3arm	2	nd	0.25	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------AUUCGGA------------------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------GATTCGGATTGGTTTTGGTACACC--------------------	24	1
cbriggsae	cggccattcttttttttttttttggttttcaggaaatgtggatcaaacGATTCGGATTGGTTTTGGTACACCgattaaggagaaatgttgtc
	********************************************************************************************
	------------------------------------------------------------------------------------------------------	NM_177366
	------------------------------------------------------------------------------------------------------	NM_001069244
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_058481
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_014920
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_016513
	------------------------------------------------------------------------------------------------------	NM_059707
	------------------------------------------------------------------------------------------------------	NM_010301
	------------------------------------------------------------------------------------------------------	NM_008139
cbriggsae	.(((.((...(((((((((..(((((..(((((((((.((((((....)))))).)))..))))))...)))))..))))))))).)).)))	0.990 -21.50

cbriggsae

chromosome:chrI:2330146:2330237:1

Opposite_strand|Intronic_non-coding|NM_177366|Gpr157 ## Same_strand|Intronic_non-coding|NM_058481|ubc-3 ## {Repeats: no}

block282 [novel]

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	0.123	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	19	5	3arm	1	nd	0.27	2	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------GUUGGGU---------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------GGTTGGGTGCCTTTCGCTCTCT-------------------	22	1
cbriggsae	gggggagacggtcagacggtcagagggaattgcactggtcaatacgaacgagggaagtggtGGTTGGGTGCCTTTCGCTCTCTgtcttggcaacatttctct
	******************************************************************************************************
	----------------------------------------------------------------------------------------------------------------	NM_001069244
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_058481
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065146
cbriggsae	((((((....(((((((((..((((.(((..(((((..(((.(((...........))).)))..)).)))..))).)))))))))).)))....)))))).	1.000 -35.00

cbriggsae

chromosome:chrI:2412081:2412182:1

Opposite_strand|Intronic_non-coding|NM_001069244|Os09g0261400 ## Same_strand|Intronic_non-coding|NM_058481|ubc-3 ## Same_strand|Intronic_coding|NM_065146|H14E04.4 ## {Repeats: no}

block293 [novel]

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	0.100	no	no	0.45/0.45	22/22/1.00	0.0	0.0	1	0	1	0	17	16	5arm	1	nd	0.27	2	1	1	na	na

		reads	miRBase family seed
seed	------------------AUUUGCU---------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------GATTTGCTTCTCAAGTGCTTCC-------------------------------------------------------------------------------	22	1
cbriggsae	gagacttcctccaagtcGATTTGCTTCTCAAGTGCTTCCcgcattccgatatgaatcgaacttttctgaatcggcggctcaggaagcttgatttttggcagaattggacagtgttttt
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_060137
	--------------------------------------------------------------------------------------------------------------------------------	NM_001122952
	--------------------------------------------------------------------------------------------------------------------------------	NM_001088550
	--------------------------------------------------------------------------------------------------------------------------------	NM_010905
	--------------------------------------------------------------------------------------------------------------------------------	NM_001122953
	--------------------------------------------------------------------------------------------------------------------------------	NM_011543
	--------------------------------------------------------------------------------------------------------------------------------	NM_001087250
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001025922
	<<<<<<<<<<------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_001047242
cbriggsae	(((((....(((((.....((((((..((((..((((((.((...(((((..(((........)))...)))))..))...)))))))))).....)))))).)))))....))))).	0.960 -31.60

cbriggsae

chromosome:chrI:3236458:3236575:1

Same_strand|Intronic_coding|NM_060137|F42H11.1 ## Opposite_strand|Intronic_non-coding|NM_001122952|Nfia ## Opposite_strand|Intronic_coding|NM_001088550|FGFR-4c ## Same_strand|Intronic_non-coding|NM_001025922|unc-87 ## Opposite_strand|Boundary_coding|NM_001047242|cdt-1 ## {Repeats: no}

block299 [novel]

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	0.043	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	22	0	5arm	5	nd	0.30	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------CGCAAUU----------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------ACGCAATTTTTGAACGCCTC----------------------------------------------	20	1
cbriggsae	tcccctgaaacatgggtgacatACGCAATTTTTGAACGCCTCcaggaggcagaagacagaaattggaaagatcctgaaaaaatgggga
	****************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_026450
	--------------------------------------------------------------------------------------------------	NM_001093227
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_177350
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_009930
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_058794
	--------------------------------------------------------------------------------------------------	NM_001024290
	--------------------------------------------------------------------------------------------------	NM_175692
	--------------------------------------------------------------------------------------------------	NM_001078787
	--------------------------------------------------------------------------------------------------	NM_001109774
	--------------------------------------------------------------------------------------------------	NM_001114303
	--------------------------------------------------------------------------------------------------	NM_001114304
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001089360
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_059581
	--------------------------------------------------------------------------------------------------	NM_121223
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_115574
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_021399
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001079883
	>>................................................................................................	NM_001032415
cbriggsae	(((((........(((.........(((((((((...(((((...)))))......))))))))).......)))........)))))	0.780 -22.38

cbriggsae

chromosome:chrI:4054229:4054316:1

Same_strand|Intronic_non-coding|NM_026450|Zfp169 ## Opposite_strand|Intronic_coding|NM_001093227|MGC80275 ## Same_strand|Intronic_coding|NM_009930|Col3a1 ## Opposite_strand|Intronic_non-coding|NM_001024290|Gal3st3 ## {Repeats: no}

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other hairpins:

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miR-Intess™

block58 [novel]

block75 [novel]

block106 [novel]

block184 [novel]

block271 [novel]

block277 [novel]

block280 [novel]

block282 [novel]

block293 [novel]

block299 [novel]