miR-Intess: classification

other hairpins

block1890456 [novel_lenNOK_5varHIGH_mirtron]

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	0.241	no	no	0.78/0.86	18/22/0.50	0.0 1.7	0.0 0.3	1 3	0 0	1 2	0 0	25 16	5 11	3arm 3arm	1 1	4 3	0.20 0.18	3 3	4	3	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------CCUCUGC--------------------------	2	novel
seed	------------------------------------------------------------------------CCGUCGC-------------------------------------	1	novel
seed	------------------------------------------------------------------------------CCGCGCC-------------------------------	1	novel
		len	cloning frequencies
			T1S2	T4S2	T5S1
	----------------------------------------------------------------------------------GCCTCTGCCGCAGCCCCA----------------	18	-	-	2
	-----------------------------------------------------------------------------GCCGCGCCTCTGCCGCAGCCCC-----------------	22	-	1	-
	-----------------------------------------------------------------------ACCGTCGCCGCGCCTCTGCC-------------------------	20	1	-	-
rat	cgccctgcccgtgggtgggaaaagcccgagctgctgcagcgcggcggcgtccctgggtgcagcgagctgtcACCGTCGCCGCGCCTCTGCCGCAGCCCCAtctctgcgccagtgcg
	********************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000034353 ENSRNOG00000022457
rat	(((.((((.((.(((((((..........(((((.(((((((((((((.......(((((((....))).))))))))))))))...))).)))))))))))).)).)).)).)))	0.820 -57.81

rat

chromosome:5:155209111:155209226:1

Same_strand|Boundary_non-coding|ENSRNOT00000034353|ENSRNOG00000022457 ## ENSRNOG00000022457|pseudogene||

block2357751 [novel_lenNOK_5varHIGH_mirtron]

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	0.072	no	no	0.57/0.63	18/23/0.50	2.2	2.0	4	0	3	0	8	23	5arm	1	0	0.28	3	4	3	na	na

		reads	miRBase family seed
seed	---------------ACCCUCU-------------------------------------------------------------------------------------	1	novel
seed	----------UUAGUAC------------------------------------------------------------------------------------------	1	novel
seed	-----------UAGUACC-----------------------------------------------------------------------------------------	1	novel
seed	---------CUUAGUA-------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T4S1
	--------TCTTAGTACCCTCTGCCCCCT------------------------------------------------------------------------------	21	-	1	-
	---------CTTAGTACCCTCTGCCCCC-------------------------------------------------------------------------------	19	1	-	-
	----------TTAGTACCCTCTGCCCCCTACAG--------------------------------------------------------------------------	23	-	-	1
	--------------TACCCTCTGCCCCCTACA---------------------------------------------------------------------------	18	-	-	1
rat	gttccttgTCTTAGTACCCTCTGCCCCCTACAGctggcgctcacgtaagcaaagacaacagttggctaaagctcggactgtagagctgggggaccctgaccgggacc
	***********************************************************************************************************
	++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000028416 ENSRNOG00000020936 Nradd
rat	..((((.(((...((.(((((.((...((((((((((.(((......(((...(((....))).)))..))))))).)))))).)).)))))))...))).))))..	0.930 -37.70

rat

chromosome:8:115002790:115002896:-1

block2627791 [novel_lenNOK_5varHIGH_mirtron]

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	0.091	no	no	0.41/0.50	18/22/0.50	1.5	0.5	2	0	2	0	31	0	5arm	1	1	0.22	2	2	2	na	na

		reads	miRBase family seed
seed	-----------------------------------GGUCCUU---------------------------------------------------------------------------	1	novel
seed	--------------------------------UAUGGUC------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	-------------------------------ATATGGTCCTTGATTCTCTCCA----------------------------------------------------------------	22	1	-
	----------------------------------TGGTCCTTGATTCTCTCC-----------------------------------------------------------------	18	-	1
rat	acagttcccagacaaggggtggcagtggtttATATGGTCCTTGATTCTCTCCAggtgaggaagaagatggagatgaagatgaggaagctgaggctcctacgggcaagcgggtagctg
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000025093 ENSRNOG00000018584 Ptma
rat	.((((((((.....((((((..((((...........(((((..(((((((((..............)))))).)))...))))).))))..))))))..........))).)))))	0.530 -34.70

rat

chromosome:9:85294190:85294306:1

block485738 [novel_lenNOK_5varHIGH_mirtron]

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	0.071	no	no	0.39/0.47	18/23/0.33	3.3	4.3	3	0	1	0	16	16	3arm	1	1	0.22	2	3	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------GGUGAGU----------------------------------	1	novel
seed	----------------------------------------------------------------------------UGAGUUU--------------------------------	1	novel
seed	----------------------------------------------------------------------------------UGGCUAG--------------------------	1	novel
		len	cloning frequencies
			T2S1
	---------------------------------------------------------------------------------TTGGCTAGGAAAATGAGA----------------	18	1
	---------------------------------------------------------------------------GTGAGTTTGGCTAGGAAAATGAG-----------------	23	1
	-------------------------------------------------------------------------AGGTGAGTTTGGCTAGGAA-----------------------	19	1
rat	tccgcaaggggttttgattggtcagtcggagaggttatctgggattcggccaccctgggccggggactttgatAGGTGAGTTTGGCTAGGAAAATGAGAaattcctcttcatgga
	*******************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000025678 ENSRNOG00000018825 Wdr23
	.................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000059987 ENSRNOG00000018825 Wdr23
rat	((((.((((((((((.(((..(((((((((....(((((.((..(((((((......)))))))..))..))))).....))))))).))..))).))))...))))))..))))	0.830 -35.60

rat

chromosome:15:33691548:33691662:1

novel_lenNOK_5varHIGH_randfoldOK_nonpairedHIGH_bulgeHIGH (11 loci)

block35316 [novel_lenNOK_5varHIGH_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	0.44/0.58	19/25/0.00	1.2	3.6	5	0	2	0	21	3	5arm	1	nd	0.32	4	5	2	na	na

		reads	miRBase family seed
seed	----------------------CCGAGUU---------------------------------------------------------------------------------------	3	novel
seed	-------------------------AGUUGCA------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S2	T5S1
	---------------------GCCGAGTTGCAGGAGATTC----------------------------------------------------------------------------	19	2	1
	------------------------GAGTTGCAGGAGATTCGTTTAACAG-------------------------------------------------------------------	25	2	-
rat	tttagcacttcggtgcggccgGCCGAGTTGCAGGAGATTCGTTTAACAGcctaaggggagctgtgtggcttttgcttctgcgaacctgcggtgggctgcattttacacagttaaaa
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000013387 ENSRNOG00000009819 Vezf1_predicted
rat	((((((.....(((((((((.((((..(((((((((....(((..(((((((....)).)))))..))).....))))))))).....)))).))))))))).......)))))).	0.920 -46.80

rat

chromosome:10:76340112:76340227:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000055705|ENSRNOG00000009819 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000013387|ENSRNOG00000009819 ## ENSRNOG00000009819|protein_coding|Vezf1_predicted|similar to splicing factor, arginine/serine-rich 1 (ASF/SF2) (LOC689890), mRNA [Source:RefSeq_dna;Acc:NM_001109552] ## {SimpF: oe = 0.97 -1 CpG}

block933311 [novel_lenNOK_5varHIGH_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	0.58/0.62	19/21/0.50	1.5	0.5	2	0	2	0	18	5	5arm	1	nd	0.42	5	2	2	na	na

		reads	miRBase family seed
seed	----------------------AGUCCCC-------------------------------------------------------------	1	novel
seed	-------------------UGAAGUC----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T4S1
	---------------------AAGTCCCCTCCCACCTTGT--------------------------------------------------	19	1	-
	------------------CTGAAGTCCCCTCCCACCTTG---------------------------------------------------	21	-	1
rat	actctgacttgcctggccCTGAAGTCCCCTCCCACCTTGTgtcttgagagggagggggagggggaggagagggaagagagggagtgggag
	******************************************************************************************
rat	.((((.((((.(((..((((....(((((((((.((.....((((....))))))))))))))).....)))).....))))))).))))	1.000 -41.90

rat

chromosome:1:253298761:253298850:-1

intergenic

block1310374 [novel_lenNOK_5varHIGH_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	0.50/0.54	19/26/0.57	1.4	3.6	7	0	2	0	28	3	5arm	1	14	0.35	4	7	2	na	na

		reads	miRBase family seed
seed	-----------------------------ACAGCUG-------------------------------------------------------------------------	5	novel
seed	----------------------------------UGACUGA--------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S1	T5S1
	---------------------------------CTGACTGATGGGTATGGGAGT-------------------------------------------------------	21	2	-
	----------------------------GACAGCTGACTGATGGGTAT-------------------------------------------------------------	20	2	-
	----------------------------GACAGCTGACTGATGGGTATGGGAGT-------------------------------------------------------	26	2	-
	----------------------------GACAGCTGACTGATGGGTA--------------------------------------------------------------	19	-	1
rat	agcctgaccttcaaggtgaggatctgggGACAGCTGACTGATGGGTATGGGAGTatccctcgagctccattctccccactcggcttccttctccttcctaggtccaggc
	*************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>	ENSRNOT00000026153 ENSRNOG00000019281 RGD1303130
rat	.(((((((((...(((.(((((...(((((.((((((.((..(((....(((((.((....))))))).....))))).))))))))))).))))))))))))).))))	0.980 -45.90

rat

chromosome:2:180439310:180439418:1

block1482661 [novel_lenNOK_5varHIGH_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	0.32/0.33	18/19/0.00	1.5	1.0	2	0	2	0	8	18	5arm	1	nd	0.42	4	2	2	na	na

		reads	miRBase family seed
seed	------------UGUAAGU---------------------------------------------------------------------------------	1	novel
seed	---------AGUUGUA------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T5S2
	-----------TTGTAAGTTGAAGTAAGG-----------------------------------------------------------------------	18	1	-
	--------GAGTTGTAAGTTGAAGTAA-------------------------------------------------------------------------	19	-	1
rat	gtcagcctGAGTTGTAAGTTGAAGTAAGGcttgtgtgcacacatgcatgtgtgtgtgtgtgtatacacaaaattgatataaataagtacagaagatgact
	****************************************************************************************************
rat	((((..((...(((((.(((....(((....((((((((((((((((....)))))))))))))))).....))).....)))...))))).)).)))).	0.470 -30.40

rat

chromosome:3:105584094:105584193:1

intergenic

block1782211 [novel_lenNOK_5varHIGH_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	0.53/0.63	19/24/0.25	1.8	1.0	4	0	2	0	25	7	5arm	6	nd	0.37	4	4	2	na	na

		reads	miRBase family seed
seed	------------------------------GAAGCAC-----------------------------------------------------------------------	2	novel
seed	--------------------------CAAAGAA---------------------------------------------------------------------------	1	novel
seed	---------------------------AAAGAAG--------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T4S1
	-----------------------------AGAAGCACGTCAGCAGGGC------------------------------------------------------------	19	-	2
	--------------------------CAAAGAAGCACGTCAGCAG---------------------------------------------------------------	19	-	1
	-------------------------ACAAAGAAGCACGTCAGCAGGGCC-----------------------------------------------------------	24	1	-
rat	caaagtccttatgagattgtgtaaaACAAAGAAGCACGTCAGCAGGGCCtgggcctatggtgggtccaggtgtgccaagtgtgtccgtgacaggatcaagtgggcttt
	************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056651 ENSRNOG00000010735 Nfyc
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000014457 ENSRNOG00000010735 Nfyc
rat	.(((((((......((((.(((...((...((.((((....(((..((((((((((.....)))))))))).)))...)))).)).)).))).))))....)))))))	0.990 -40.60

rat

chromosome:5:141391313:141391420:-1

block2325149 [novel_lenNOK_5varHIGH_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	0.003	no	no	0.48/0.61	18/25/0.33	2.0 0.0	1.5 0.0	2 1	0 0	2 1	0 0	5 1	0 8	3arm 3arm	1 1	nd nd	0.39 0.48	5 7	3	3	na	na

		reads	miRBase family seed
seed	------------------------------GUCUGCC----------------------	1	miR-346
seed	--------------------------------------CUUGUCC--------------	1	novel
seed	----------------------------------GCCUCUU------------------	1	novel
		len	cloning frequencies
			T4S2	T5S1	T5S2
	-----------------------------TGTCTGCCTCTTGTCCTGCACCAAA-----	25	-	1	-
	---------------------------------TGCCTCTTGTCCTGCACC--------	18	-	-	1
	-------------------------------------TCTTGTCCTGCACCAAAAGTG-	21	1	-	-
rat	cactgcccaagaccagaggccacaacttcTGTCTGCCTCTTGTCCTGCACCAAAAGTGc
	***********************************************************
rat	((((...((.(((.((((((.(((.....)))..)))))).))).)).......)))).	0.460 -16.70