miR-Intess: classification

other hairpins

novel_lenNOK_cloningOK_loopOverlap (172 loci)

block1066904 [novel_lenNOK_cloningOK_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	0.352	no	no	0.48/0.53	19/26/0.20	0.0 0.0	0.0 0.0	2 5	0 0	1 3	0 0	36 22	-4 14	3arm_loop 3arm	1 1	nd nd	0.48 0.26	6 1	10	3	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------ACACGUG---------------------------------	7	novel
seed	--------------------------------------------------------------CUGGCUC---------------------------------------------------	2	novel
seed	-------------------------------------------------------------------------AGGUUCU----------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	-------------------------------------------------------------------------------TACACGTGCCTTCTGTCTG----------------------	19	1	1	5
	-------------------------------------------------------------TCTGGCTCTGATAGGTTCTACAC------------------------------------	23	-	-	2
	------------------------------------------------------------------------TAGGTTCTACACGTGCCTTCTGTCTG----------------------	26	1	-	-
rat	actttctgttaaccagcaaatctcatgacgatctcggtacctgaggaacatccctgagcgtTCTGGCTCTGATAGGTTCTACACGTGCCTTCTGTCTGcctgtcctgggaattagtctgt
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000038623 ENSRNOG00000028243 NP_001103047.1
rat	((...(((....((((.......((.(((((....(((((.((.(((((......((((......))))......))))).)).))))).)).)))))......))))....)))...))	0.690 -29.62

rat

chromosome:20:13188610:13188729:-1

block1414014 [novel_lenNOK_cloningOK_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	0.687	no	no	0.37/0.42	19/19/0.00	0.5	0.5	12	0	2	0	36	-2	5arm_loop	2	nd	0.26	3	13	2	na	na

		reads	miRBase family seed
seed	---------------------------------------GCAGGGU-------------------------------------------------------------------	10	novel
seed	-------------------------------------AUGCAGG---------------------------------------------------------------------	3	novel
		len	cloning frequencies
			T4S2	T5S1
	--------------------------------------TGCAGGGTTTACAAGTTAG--------------------------------------------------------	19	1	9
	------------------------------------TATGCAGGGTTTACAAGTT----------------------------------------------------------	19	-	3
rat	cattctaagttcacaatgtcatgtagagtcggctgtTATGCAGGGTTTACAAGTTAGcaaacatgtcacaaaatttaggtgatagcttgatttttacagaagtactttcatgt
	*****************************************************************************************************************
rat	(((...((((..((....((.((((((((((((((((((...(((((((((.(((....))).)))....))))))..))))))))).)))))).))))).))))))..))).	0.830 -18.70

rat

chromosome:3:141686793:141686905:-1

intergenic

block1766720 [novel_lenNOK_cloningOK_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	0.116	no	no	0.35/0.42	19/26/0.38	0.8	3.4	10	0	6	0	26	-5	3arm	1	nd	0.23	3	16	6	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------AUCCAAG--------------------------------------------	11	novel
seed	------------------------------------------------------------CCAAGCA------------------------------------------	2	novel
seed	------------------------------------------------------GAUCAUC------------------------------------------------	2	novel
seed	---------------------------------------------------------CAUCCAA---------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T5S1	T5S2
	---------------------------------------------------------CATCCAAGCACCAAAATTCAAATCAC--------------------------	26	1	-	2	1	4	-
	---------------------------------------------------------CATCCAAGCACCAAAATTCA--------------------------------	20	-	-	-	-	2	-
	-----------------------------------------------------TGATCATCCAAGCACCAAA-------------------------------------	19	-	-	-	-	2	-
	--------------------------------------------------------TCATCCAAGCACCAAAATTCA--------------------------------	21	-	1	-	-	-	-
	-----------------------------------------------------------TCCAAGCACCAAAATTCAAA------------------------------	20	-	-	-	-	1	-
	---------------------------------------------------------CATCCAAGCACCAAAATTCAAA------------------------------	22	-	-	-	-	-	1
	-----------------------------------------------------------TCCAAGCACCAAAATTCAAATCAC--------------------------	24	-	-	-	-	1	-
rat	agataaaataacagataaaaagtgatctgttgatttgaacatggttggcatccTGATCATCCAAGCACCAAAATTCAAATCACgtcttttccttgtttttttttatttt
	*************************************************************************************************************
rat	((((((((.(((((...(((((.....((.(((((((((..(((((((.((.......)))))...))))...))))))))))).)))))..)))))...)))))))).	0.430 -18.40

rat

chromosome:5:114528214:114528322:-1

intergenic

block1848574 [novel_lenNOK_cloningOK_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	0.050	no	no	0.28/0.50	18/26/0.56	0.6 0.0	0.7 0.0	29 1	0 0	5 1	0 0	35 27	-6 5	3arm_loop 3arm	1 1	nd nd	0.35 0.22	4 2	39	5	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------UAGACAG------------------------------------------------	24	novel
seed	---------------------------------------------------------------AGACAGU-----------------------------------------------	14	novel
seed	-------------------------------------------------------------------------GAAAAUG-------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T3S1	T4S1	T4S2	T5S1
	-------------------------------------------------------------TTAGACAGTGTTGAAAATG-------------------------------------	19	2	-	-	-	10
	--------------------------------------------------------------TAGACAGTGTTGAAAATGTG-----------------------------------	20	-	-	1	-	11
	-------------------------------------------------------------TTAGACAGTGTTGAAAATGTG-----------------------------------	21	1	1	-	-	8
	--------------------------------------------------------------TAGACAGTGTTGAAAATGT------------------------------------	19	-	-	-	1	-
	------------------------------------------------------------------------TGAAAATGTGCCTCCTGG---------------------------	18	-	-	-	-	1
	-------------------------------------------------------------TTAGACAGTGTTGAAAATGTGCCTCC------------------------------	26	-	-	-	-	1
	-------------------------------------------------------------TTAGACAGTGTTGAAAAT--------------------------------------	18	-	-	-	-	1
	--------------------------------------------------------------TAGACAGTGTTGAAAATGTGCCTCC------------------------------	25	-	-	-	-	1
rat	cctggatctggaggtggtcagggccagacaggaagaaggaaaggcgagattggtcagctctTTAGACAGTGTTGAAAATGTGcctcctggagacagctctggacagctcttcacagg
	*********************************************************************************************************************
rat	((((.....((((.((..((((((....(((((.........((((..(((..(((((.((......)).))))).))).)))))))))......))))))..)).))))...))))	0.940 -40.50

rat

chromosome:5:79248799:79248915:1

intergenic

novel_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH (172 loci)

block22111 [novel_loopOverlap_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	0.001	no	no	0.48/0.48	23/23/1.00	0.0	0.0	2	0	1	0	32	-3	5arm_loop	7	nd	0.43	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------AAGGGCA---------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S1
	--------------------------------CAAGGGCATGTTCACACAAGCAA------------------------------------------------------	23	2
rat	ctcacatggacatgctcacacaggcaagctcaCAAGGGCATGTTCACACAAGCAAactcacatgaacatgctcacacgggcaaactcacaagggcatgttcacatgggc
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	ENSRNOT00000004390 ENSRNOG00000003287 LOC303215
rat	((((..(((((((((((.....((...((((....(((((((((((....((....))....)))))))))))....))))...)).....)))))))))))..)))).	0.940 -38.60

rat

chromosome:10:49025415:49025523:-1

Opposite_strand|Intronic_coding|ENSRNOT00000004390|ENSRNOG00000003287 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000050426|ENSRNOG00000003287 ## ENSRNOG00000003287|protein_coding|LOC303215|LOC303215 protein. [Source:UniProtKB/TrEMBL;Acc:Q66HH5] ## {Repeats: trf 545 568 0 class=trf,trf 602 625 0 class=trf,trf 600 623 0 class=trf}

block27153 [novel_loopOverlap_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	0.005	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	31	-3	5arm_loop	1	nd	0.45	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------GAGGUCA-------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	-------------------------------GGAGGTCAATGCAAGGGGAC-------------------------------------------------------	20	1
rat	ccactcctagccctagcaggggtaaagcccaGGAGGTCAATGCAAGGGGACagaactctgaggcctgtcaccttcccaaggagattcccctgcagggatgagggtg
	**********************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------	ENSRNOT00000026351 ENSRNOG00000019458 Carkl
rat	.(((.(((..((((.(((((((.....((..((((((....((.((((.......))))...)).....))))))....)).....)))))))))))...))))))	0.740 -44.00

rat

chromosome:10:60091410:60091515:-1

block67809 [novel_loopOverlap_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	0.005	no	no	0.20/0.20	20/20/1.00	0.0	0.0	1	0	1	0	5	-1	5arm_loop	1	nd	0.40	4	1	1	na	na

		reads	miRBase family seed
seed	------AAAAUCU------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	-----TAAAATCTCATTTAATCTAG------------------------------------	20	1
rat	cttgtTAAAATCTCATTTAATCTAGaaaaaaaaatagatgcattgagacacttaagcagga
	*************************************************************
rat	((((((.((.(((((....(((((..........)))))....)))))...)).)))))).	1.000 -12.70

rat

chromosome:10:33434956:33435016:1

intergenic

block72568 [novel_loopOverlap_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	0.50/0.50	22/22/1.00	0.0	0.0	1	0	1	0	6	-4	5arm_loop	1	nd	0.55	5	1	1	na	na

		reads	miRBase family seed
seed	-------UGUCUCC---------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	------CTGTCTCCATGACCTTCCATCA-------------------------------	22	1
rat	cttcccCTGTCTCCATGACCTTCCATCAtaacttctaaggggggaggggaaggggggag
	***********************************************************
rat	((((((((.(((((....((..((..............))..)).))))).))))))))	0.990 -26.54

rat

chromosome:10:43675080:43675138:1

intergenic

block73801 [novel_loopOverlap_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	0.006	no	no	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	14	-3	5arm_loop	1	nd	0.45	4	1	1	na	na

		reads	miRBase family seed
seed	---------------AGGCUUU----------------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	--------------GAGGCTTTTCTTTGGGAAAA----------------------------------	20	1
rat	ggcttaagatggtgGAGGCTTTTCTTTGGGAAAAgcttgcagggggaggtgagcaccagaacttgcca
	********************************************************************
	------------------------------------------------------------------------------	ENSRNOT00000004753 ENSRNOG00000003463 Srebf1
	------------------------------------------------------------------------------	ENSRNOT00000004488 ENSRNOG00000003463 Srebf1
rat	(((......(((((...((((..(((((.((.....)).)))))..))))...)))))......))).	0.990 -25.00

rat

chromosome:10:46207001:46207068:1

Opposite_strand|Boundary_non-coding|ENSRNOT00000058155|ENSRNOG00000003463 ## Opposite_strand|Intronic_coding|ENSRNOT00000004753|ENSRNOG00000003463 ## ENSRNOG00000003463|protein_coding|Srebf1|Sterol regulatory element-binding protein 1 (SREBP-1) (Sterol regulatory element-binding transcription factor 1) (Adipocyte determination- and differentiation-dependent factor 1) (ADD1) [Contains: Processed sterol regulatory element-binding protein 1] (Fr [Source:UniProtKB/Swiss-Prot;Acc:P56720]

block74979 [novel_loopOverlap_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	0.64/0.64	22/22/1.00	0.0	0.0	1	0	1	0	21	-1	5arm_loop	1	nd	0.36	4	1	1	na	na

		reads	miRBase family seed
seed	----------------------CAGGCCU--------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	---------------------TCAGGCCTAGGTGGAACCCCAC------------------------------------------------	22	1
rat	gagctcatagcccagtatggtTCAGGCCTAGGTGGAACCCCACaggctgggaagtacagttgggtatgaagtgtggagaggttggggcttg
	*******************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003966 ENSRNOG00000002922 Adora2b
rat	((((((.(((((...((((.((((.((((((.((....((((.....)))).....)).)))))).)))).))))....))))))))))).	0.740 -32.60