miR-Intess: classification

other hairpins

block230191 [novel_shortStem_5varHIGH]

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	0.246	no	no	0.62/0.67	19/24/0.75	1.5	1.8	4	0	3	0	0	1	3arm	1	36	0.26	2	4	3	na	na

		reads	miRBase family seed
seed	---------------------------------------GUCCCUG----------------	3	novel
seed	-------------------------------------GAGUCCC------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	--------------------------------------AGTCCCTGGCTGACCGCAACC---	21	-	-	1
	--------------------------------------AGTCCCTGGCTGACCGCAA-----	19	-	1	-
	--------------------------------------AGTCCCTGGCTGACCGCAACCACC	24	-	-	1
	------------------------------------AGAGTCCCTGGCTGACCGCAA-----	21	1	-	-
rat	ggtgagctctgcctggggcccctccctgctttacacAGAGTCCCTGGCTGACCGCAACCACC
	**************************************************************
	>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000001866 ENSRNOG00000001380 Tpcn1
rat	(((..((((.(((.(((((......(((.......))).))))).))).))..)).)))...	0.970 -19.10

rat

chromosome:12:37216627:37216688:1

block614935 [novel_shortStem_5varHIGH]

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	0.079	no	no	0.45/0.58	20/24/1.00	1.5	3.5	2	0	1	0	3	12	3arm	1	nd	0.20	1	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------GAGGUAG-------------------	1	let-7a/7b/7c/7d/7e/7f/7i/miR-98
seed	------------------------------------------------------------AUUGAGG----------------------	1	novel
		len	cloning frequencies
			T5S1
	-----------------------------------------------------------TATTGAGGTAGTGCACGAAG----------	20	1
	--------------------------------------------------------------TGAGGTAGTGCACGAAGCCCACAG---	24	1
rat	ggcggctccctgtgcactctgcggggtaagacatcgcctgagctaaggctgcaggcttcTATTGAGGTAGTGCACGAAGCCCACAGcca
	*****************************************************************************************
rat	(((((((...((((((((((.(((....(((....((((((((....))).))))).))).))).)).)))))))).))))....))).	0.620 -34.60

rat

chromosome:17:47221228:47221316:-1

intergenic

block713050 [novel_shortStem_5varHIGH]

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	0.065	no	no	0.64/0.65	20/22/1.00	3.0	2.0	2	0	1	0	0	17	3arm	1	nd	0.26	3	2	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------GGCCAGA------------------	1	novel
seed	-------------------------------------------------------------------------------AACGGGU------------	1	novel
		len	cloning frequencies
			T5S1
	------------------------------------------------------------------------TGGCCAGAACGGGTCCGAAGGT----	22	1
	------------------------------------------------------------------------------GAACGGGTCCGAAGGTGAGC	20	1
rat	gtttagatcagctcgtttgtgtagaaggctggtgataagagtaggaactcctaaaggagagcttaagtaagcTGGCCAGAACGGGTCCGAAGGTGAGC
	**************************************************************************************************
rat	(((((..((.((((((((........(((..((..((....((((..((((....))))..))))..)).))..))).))))))))..))...)))))	0.700 -27.30

rat

chromosome:18:63572694:63572791:-1

intergenic

block881012 [novel_shortStem_5varHIGH]

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	0.131	no	no	0.32/0.36	19/22/0.80	1.2	1.0	5	0	2	0	1	9	5arm	1	nd	0.23	3	5	2	na	na

		reads	miRBase family seed
seed	---ACAAAGU-------------------------------------------------------------------	3	novel
seed	-----AAAGUAU-----------------------------------------------------------------	1	novel
seed	--GACAAAG--------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S1	T5S1
	--GACAAAGTATATTCACTGAG-------------------------------------------------------	20	1	-
	--GACAAAGTATATTCACTGAGCT-----------------------------------------------------	22	-	1
	----CAAAGTATATTCACTGAGCT-----------------------------------------------------	20	-	1
	--GACAAAGTATATTCACTGA--------------------------------------------------------	19	-	1
	-AGACAAAGTATATTCACTGAGC------------------------------------------------------	22	-	1
rat	cAGACAAAGTATATTCACTGAGCTgctctctgccaggggagagtggagaacaggttcagagttggaacactgtttgc
	*****************************************************************************
rat	((((((..((...(((((((((((..(((((((.........)))))))...)))))))...))))))..)))))).	0.620 -21.00

rat

chromosome:1:129000281:129000357:-1

intergenic

block1093693 [novel_shortStem_5varHIGH]

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	0.090	no	no	0.58/0.67	19/22/0.75	3.0	3.2	4	0	2	0	0	1	5arm	1	nd	0.10	2	4	2	na	na

		reads	miRBase family seed
seed	--------AGGUUCU--------------------------------------------------	2	novel
seed	-GGAGCAC---------------------------------------------------------	1	novel
seed	---AGCACAG-------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2	T5S1
	-------CAGGTTCTGACGCCCAGGAGC-------------------------------------	21	-	2
	TGGAGCACAGGTTCTGACG----------------------------------------------	19	1	-
	--GAGCACAGGTTCTGACGCCCAG-----------------------------------------	22	-	1
rat	TGGAGCACAGGTTCTGACGCCCAGGAGCgagccaatgtgctgcttgggccagttcagcctactct
	*****************************************************************
rat	.((((...((((((((..(((((((((((........)))).))))))))))...))))).))))	1.000 -24.10

rat

chromosome:20:5545324:5545388:1

intergenic

block1499850 [novel_shortStem_5varHIGH]

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	0.142	no	no	0.48/0.50	20/24/1.00	1.7	3.3	3	0	2	0	1	7	3arm	2	nd	0.24	3	3	2	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------GCAGAAU--------------	1	novel
seed	----------------------------------------------------GCUGCAG-----------------	1	novel
seed	---------------------------------------------------UGCUGCA------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	--------------------------------------------------TTGCTGCAGAATGCAGGTGA------	20	1	-
	---------------------------------------------------TGCTGCAGAATGCAGGTGATCTGT-	24	-	1
	------------------------------------------------------TGCAGAATGCAGGTGATCTGT-	21	-	1
rat	acaggctccatgccgtttcttgtacagtgggatcctgacccatggcttccTTGCTGCAGAATGCAGGTGATCTGTa
	****************************************************************************
rat	(((((..((.(((...(((.(((((((.((((.((........)).))))))).))))))).)))))...))))).	0.860 -21.50

rat

chromosome:3:141756877:141756952:1

intergenic

block1723076 [novel_shortStem_5varHIGH]

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	0.290	no	no	0.33/0.38	21/24/1.00	3.0	4.0	6	0	2	0	4	5	5arm	2	nd	0.29	2	6	2	na	na

		reads	miRBase family seed
seed	-----------AAUCAUA--------------------------------------------------------	2	novel
seed	--------GGUAAUC-----------------------------------------------------------	2	novel
seed	-----AGUGGUA--------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T5S1
	----TAGTGGTAATCATATCAGGGT-------------------------------------------------	21	2	-
	-------TGGTAATCATATCAGGGTAGATGT-------------------------------------------	24	-	2
	----------TAATCATATCAGGGTAGATGT-------------------------------------------	21	-	2
rat	cctgTAGTGGTAATCATATCAGGGTAGATGTacagggctctttgaataagttggggtgatgaatgattgtgggt
	**************************************************************************
rat	((..((((.((.(((((..(((..((......((((....))))..))..)))..)))))..)).))))..)).	0.640 -14.20

rat

chromosome:5:25424732:25424805:-1

intergenic

block1767234 [novel_shortStem_5varHIGH]

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	0.203	no	no	0.30/0.35	19/23/0.71	2.3	1.4	7	0	3	0	0	6	3arm	1	nd	0.26	3	7	3	na	na

		reads	miRBase family seed
seed	--------------------------------------------------UAUACUA------------	3	novel
seed	--------------------------------------------GCUGAUU------------------	2	novel
seed	---------------------------------------------------AUACUAG-----------	1	novel
seed	-----------------------------------------------GAUUAUA---------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	-------------------------------------------------TTATACTAGTAGTCCTTATG	20	-	-	3
	-------------------------------------------TGCTGATTATACTAGTAGTCCTT---	23	1	-	1
	--------------------------------------------------TATACTAGTAGTCCTTATG	19	-	1	-
	----------------------------------------------TGATTATACTAGTAGTCCT----	19	-	-	1
rat	tatttggtctacttaatgattaagatagtggctgagggtgaatTGCTGATTATACTAGTAGTCCTTATG
	*********************************************************************
rat	(((..((.(((((..((((((.((.((((.((.....))..))))))))))))...))))).))..)))	0.850 -13.20

rat

chromosome:5:114564282:114564350:-1

intergenic

block1821032 [novel_shortStem_5varHIGH]

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	0.218	no	no	0.33/0.38	21/24/1.00	3.0	4.0	6	0	2	0	4	5	5arm	2	nd	0.29	2	6	2	na	na

		reads	miRBase family seed
seed	-----------AAUCAUA--------------------------------------------------------	2	novel
seed	--------GGUAAUC-----------------------------------------------------------	2	novel
seed	-----AGUGGUA--------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T5S1
	----TAGTGGTAATCATATCAGGGT-------------------------------------------------	21	2	-
	-------TGGTAATCATATCAGGGTAGATGT-------------------------------------------	24	-	2
	----------TAATCATATCAGGGTAGATGT-------------------------------------------	21	-	2
rat	cctgTAGTGGTAATCATATCAGGGTAGATGTacagggctctttgaataagttggggtgatgaatgattatgggt
	**************************************************************************
rat	((((((((.((.(((((..(((..((......((((....))))..))..)))..)))))..)).)))))))).	0.640 -14.60

rat

chromosome:5:25628780:25628853:1

intergenic

novel_lenNOK_gcHIGH_shortStem_nonpairedHIGH (22 loci)

block4950 [novel_lenNOK_gcHIGH_shortStem_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	0.198	no	no	1.00/1.00	18/19/0.00	1.0	0.5	2	0	2	0	0	13	3arm	1	nd	0.37	3	2	2	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------CCCGCGG----------	1	novel
seed	------------------------------------------------------GCCCCGC------------	1	novel
		len	cloning frequencies
			T4S1	T5S2
	-------------------------------------------------------CCCCGCGGGGCCCCCGGC	18	1	-
	-----------------------------------------------------CGCCCCGCGGGGCCCCCGG-	19	-	1
rat	ccggtgcccgctcctgcggcggtccggccttccctcccgngggncnccggcccCGCCCCGCGGGGCCCCCGGC
	*************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000006680 ENSRNOG00000004766 NP_001100448.1
rat	((((.((((((....((((.((.((((....(((......)))...))))))))))...)))).))..)))).	0.840 -36.40

rat

chromosome:10:11101765:11101837:-1

Same_strand|Intronic_non-coding|ENSRNOT00000006680|ENSRNOG00000004766 ## ENSRNOG00000004766|protein_coding|NP_001100448.1|GLIS family zinc finger 2 [Source:RefSeq_peptide;Acc:NP_001100448] ## {Repeats: GC_rich 2 22 -1 class=Low_complexity,GC_rich 1 39 -1 class=Low_complexity} ## {SimpF: oe = 0.84 0 CpG, -1 Eponine}

Page 30805

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Page 31204

miR-Intess™

block230191 [novel_shortStem_5varHIGH]

block614935 [novel_shortStem_5varHIGH]

block713050 [novel_shortStem_5varHIGH]

block881012 [novel_shortStem_5varHIGH]

block1093693 [novel_shortStem_5varHIGH]

block1499850 [novel_shortStem_5varHIGH]

block1723076 [novel_shortStem_5varHIGH]

block1767234 [novel_shortStem_5varHIGH]

block1821032 [novel_shortStem_5varHIGH]

block4950 [novel_lenNOK_gcHIGH_shortStem_nonpairedHIGH]