miR-Intess: classification

other hairpins

novel_lenNOK_shortStem_loopOverlap (783 loci)

block3067450 [novel_lenNOK_shortStem_loopOverlap]

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	0.011	no	no	0.63/0.63	19/19/0.00	0.0	0.0	1	0	1	0	3	-4	3arm_loop	1	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------AGCAGUG--------------	1	novel
		len	cloning frequencies
			T1S1
	--------------------------------AAGCAGTGCGGCAAGAGCC---	19	1
rat	agtgagctctagcccccaatttccactcccacAAGCAGTGCGGCAAGAGCCact
	******************************************************
rat	((((.(((((.(((.........((((.........)))).))).)))))))))	1.000 -15.60

rat

chromosome:X:122212337:122212390:1

intergenic

block3106987 [novel_lenNOK_shortStem_loopOverlap]

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	0.53/0.53	19/19/0.00	0.0	0.0	1	0	1	0	0	-3	3arm_loop	1	nd	0.22	2	1	1	na	na

		reads	miRBase family seed
seed	--------------------GUUUGUG-----------	1	novel
		len	cloning frequencies
			T5S1
	-------------------GGTTTGTGGGTTTCCACCT	19	1
rat	gggatgggacaccatgactGGTTTGTGGGTTTCCACCT
	**************************************
	++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000046779 ENSRNOG00000037484
rat	(((.(((((..((((((.....))))))..))))))))	1.000 -13.10

rat

chromosome:X:140083624:140083661:1

Same_strand|Boundary_non-coding|ENSRNOT00000056740|ENSRNOG00000037484 ## Same_strand|Intronic_coding|ENSRNOT00000046779|ENSRNOG00000037484 ## ENSRNOG00000037484|protein_coding||

block3153640 [novel_lenNOK_shortStem_loopOverlap]

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	0.016	no	no	0.21/0.21	19/19/0.00	0.0	0.0	1	0	1	0	3	-4	3arm_loop	1	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------AAUGGAA--------------	1	novel
		len	cloning frequencies
			T5S1
	----------------------AAATGGAATTTATCACTTA---	19	1
rat	agagtgttgatgaagatttcttAAATGGAATTTATCACTTActc
	********************************************
rat	.(((((.(((((..((((((......)))))))))))..)))))	1.000 -10.60

rat

chromosome:X:150495264:150495307:1

intergenic

block36009 [novel_lenNOK_shortStem_loopOverlap]

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	0.067	no	no	0.57/0.58	19/23/0.67	0.7	2.7	3	0	3	0	3	-2	5arm_loop	4	nd	0.21	2	3	3	na	na

		reads	miRBase family seed
seed	----UCUUAGC----------------------------------------	2	novel
seed	------UUAGCCA--------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2	T4S2
	---CTCTTAGCCACGGGGATAG-----------------------------	19	-	-	1
	---CTCTTAGCCACGGGGATAGCTCT-------------------------	23	1	-	-
	-----CTTAGCCACGGGGATAGCTCT-------------------------	21	-	1	-
rat	gctCTCTTAGCCACGGGGATAGCTCTaaggtctgccctgcgcaggacagca
	***************************************************
	-------------------------------------------------------------	ENSRNOT00000037693 ENSRNOG00000000244 Coil
rat	(((.((((.((..(((((.(((((....)).)))))))).)))))).))).	1.000 -18.30

rat

chromosome:10:77508329:77508379:-1

block1600406 [novel_lenNOK_shortStem_loopOverlap]

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	0.445	no	no	0.60/0.60	25/25/0.00	0.0	0.0	1	0	1	0	3	-4	3arm_loop	1	nd	0.20	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------AUAGCCU--------------------	1	novel
		len	cloning frequencies
			T5S1
	------------------------------------------GATAGCCTCTGGCCACAGTGGGAAG---	25	1
rat	gtctatctttatgtctactgtcttgcaaggccctggtggtgaGATAGCCTCTGGCCACAGTGGGAAGgcc
	**********************************************************************
rat	((((.........((((((((.......((((..((.(((......))).)))))))))))))).)))).	0.500 -19.51

rat

chromosome:4:164237071:164237140:-1

intergenic

block1696334 [novel_lenNOK_shortStem_loopOverlap]

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	0.231	no	no	0.60/0.61	18/25/0.00	1.0	4.5	2	0	2	0	1	-2	3arm	1	nd	0.16	2	2	2	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------GAAGACA--------------------	1	novel
seed	----------------------------------------------------------------------AGACACC------------------	1	novel
		len	cloning frequencies
			T1S2	T5S1
	-------------------------------------------------------------------TGAAGACACCCAGGGGCT----------	18	-	1
	---------------------------------------------------------------------AAGACACCCAGGGGCTCAGAGCAGT-	25	1	-
rat	cacttggaaactactgagaccctctggtggattggatgtgagttagatgggagaaggaagtggaaagTGAAGACACCCAGGGGCTCAGAGCAGTg
	***********************************************************************************************
rat	(((.((....((.(((((.((((..((((..((....................................))..))))..))))))))))))))))	0.440 -19.62

rat

chromosome:4:164267787:164267881:1

intergenic

block1766902 [novel_lenNOK_shortStem_loopOverlap]

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	0.070	no	no	0.42/0.42	19/19/0.00	0.0	0.0	4	0	2	0	1	-2	3arm_loop	1	nd	0.21	2	5	2	na	na

		reads	miRBase family seed
seed	-----------------------------GCCUUAG------------	5	novel
		len	cloning frequencies
			T1S2	T5S1
	----------------------------TGCCTTAGTTGCCTCTATA-	19	1	4
rat	atatagttttcactggccttgaggagctTGCCTTAGTTGCCTCTATAt
	************************************************
rat	((((((........(((.((((((......))))))..))).))))))	0.930 -10.30

rat

chromosome:5:114551962:114552009:-1

intergenic

novel_lenNOK_shortStem_randfoldOK_nonpairedHIGH_bulgeHIGH (779 loci)

block91 [novel_lenNOK_shortStem_randfoldOK_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	0.007	no	no	0.33/0.33	18/18/0.00	0.0	0.0	1	0	1	0	1	7	5arm	1	nd	0.44	4	1	1	na	na

		reads	miRBase family seed
seed	--CUCAGAA----------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-TCTCAGAATAAACCCATA------------------------------------	18	1
rat	gTCTCAGAATAAACCCATAagatacctcaaggcagaaatagggatattctaggac
	*******************************************************
	-----------------------------------------------------------------	ENSRNOT00000004346 ENSRNOG00000003198 RGD1305733
rat	(((..((((((..(((........((....))........))).))))))..)))	1.000 -12.89

rat

chromosome:10:181639:181693:-1

block1447 [novel_lenNOK_shortStem_randfoldOK_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	0.009	no	no	0.74/0.74	19/19/0.00	0.0	0.0	1	0	1	0	2	38	5arm	1	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	---CCCCUGG---------------------------------------------------------------------------------------------------	1	miR-331
		len	cloning frequencies
			T3S2
	--TCCCCTGGAGGCGAGGGTC----------------------------------------------------------------------------------------	19	1
rat	ttTCCCCTGGAGGCGAGGGTCtgcaggttgtaggctgtctgaagcaagctggagaatgttatagcattcgcatactgcttttctcagcctctacagacccactgggaag
	*************************************************************************************************************
rat	.(((((....((....(((((((.((.....((((((...((((((...((..((((((....)))))).))...))))))...)))))))).))))))).))))))).	0.640 -41.50

rat

chromosome:10:3003280:3003388:-1

intergenic

block2335 [novel_lenNOK_shortStem_randfoldOK_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	0.004	no	no	0.33/0.33	18/18/0.00	0.5	0.5	2	0	1	0	0	2	5arm	1	nd	0.33	4	2	1	na	na

		reads	miRBase family seed
seed	--GCCCUAU------------------------------------	1	novel
seed	-AGCCCUA-------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	AAGCCCTATCTTTTGTTT---------------------------	18	1
	-AGCCCTATCTTTTGTTTT--------------------------	18	1
rat	AAGCCCTATCTTTTGTTTTctttttggtgtttcaaaatagggttt
	*********************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003541 ENSRNOG00000002588 Clec16a
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000061471 ENSRNOG00000002588 Clec16a
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000032901 ENSRNOG00000002588 Clec16a
rat	(((((((((..((((....((....)).....)))))))))))))	1.000 -10.50