miR-Intess: classification

other hairpins

novel_lenNOK_cloningHIGH_nonpairedHIGH (147 loci)

block2540865 [novel_lenNOK_cloningHIGH_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	0.118	no	no	0.38/0.44	18/21/0.03	0.0	0.0	37	0	9	0	8	26	3arm	1	nd	0.37	3	91	9	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------------AGCAGCA-------------------	91	miR-15b/16/195/322/497
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1
	-----------------------------------------------------------------------------------CAGCAGCAATTCAACTCTT--------	19	10	-	3	2	4	1	37	5	-
	-----------------------------------------------------------------------------------CAGCAGCAATTCAACTCT---------	18	2	2	1	1	2	1	10	3	4
	-----------------------------------------------------------------------------------CAGCAGCAATTCAACTCTTT-------	20	-	-	-	-	-	-	1	-	1
	-----------------------------------------------------------------------------------CAGCAGCAATTCAACTCTTTA------	21	-	-	1	-	-	-	-	-	-
rat	gtaacattagatagtcattatagcctgtattcattttaagaaaaacaaccaaattaatgaagagatttttttaagataccataCAGCAGCAATTCAACTCTTtaatttac
	**************************************************************************************************************
rat	((((.((((((.(((....((.((((((((..((((((((((((.....((......))......))))))))))))...))))))..)).))...))).))))))))))	1.000 -15.50

rat

chromosome:9:93559880:93559989:-1

intergenic

block2740248 [novel_lenNOK_cloningHIGH_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	0.197	no	no	0.40/0.44	18/20/0.17	0.0	0.2	87	0	5	0	7	31	5arm	1	nd	0.37	3	124	5	na	na

		reads	miRBase family seed
seed	--------GGUGACU-----------------------------------------------------------------------------------------------------	123	novel
seed	---------GUGACUC----------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T5S2
	-------TGGTGACTCTTGACTGTA-------------------------------------------------------------------------------------------	18	42	31	-	-	1
	-------TGGTGACTCTTGACTGTAA------------------------------------------------------------------------------------------	19	14	12	1	1	-
	-------TGGTGACTCTTGACTGTAAT-----------------------------------------------------------------------------------------	20	12	8	-	-	1
	--------GGTGACTCTTGACTGTAAT-----------------------------------------------------------------------------------------	19	1	-	-	-	-
rat	tgtttctTGGTGACTCTTGACTGTAAtaaacctgtcagattcctactctataaatcaaatcttgaactcagcagctagtatgacaggtgtagtttagtagcggaggctgaagaaat
	********************************************************************************************************************
rat	.((((((((((..((((..((((...((.((((((((.....(((((((.....(((.....)))....)).)).)))..)))))))).))...))))...))))))).)))))))	0.840 -26.70

rat

chromosome:X:85089393:85089508:-1

intergenic

block3197220 [novel_lenNOK_cloningHIGH_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	0.431	no	no	0.30/0.35	18/23/0.03	0.0	0.5	1151	0	6	0	11	15	5arm	1	nd	0.47	3	1204	6	na	na

		reads	miRBase family seed
seed	------------GGAAUGU----------------------------------------------------------------------------------	1201	miR-1/206
seed	-------------GAAUGUA---------------------------------------------------------------------------------	3	novel
		len	cloning frequencies
			T1S2	T2S1	T2S2	T4S1	T4S2	T5S1
	-----------TGGAATGTAAAGTTCATC------------------------------------------------------------------------	18	2	-	-	185	408	1
	-----------TGGAATGTAAAGTTCATCA-----------------------------------------------------------------------	19	-	4	1	171	387	-
	-----------TGGAATGTAAAGTTCATCATG---------------------------------------------------------------------	21	-	-	-	12	8	-
	-----------TGGAATGTAAAGTTCATCAT----------------------------------------------------------------------	20	-	-	-	10	9	-
	------------GGAATGTAAAGTTCATCA-----------------------------------------------------------------------	18	-	-	-	1	2	-
	-----------TGGAATGTAAAGTTCATCATGA--------------------------------------------------------------------	22	-	-	-	1	1	-
	-----------TGGAATGTAAAGTTCATCATGAG-------------------------------------------------------------------	23	-	-	-	-	1	-
rat	tcgcagagagtTGGAATGTAAAGTTCATCAtgagctttccacccttgcactagatttatagggagaaggcacggtttggacacgcagaatgatgaaagtga
	*****************************************************************************************************
rat	((((.....((((...(((...(((((...((.((((((..((((..............)))).)))))).))...)))))..)))...))))....))))	0.650 -22.54

rat

chromosome:X:160473988:160474088:1

intergenic

block929464 [novel_lenNOK_cloningHIGH_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	0.511	no	no	0.60/0.63	18/20/0.01	0.0	0.0	82	0	10	0	12	12	5arm	1	nd	0.33	2	102	10	na	na

		reads	miRBase family seed
seed	-------------GAGGUAG--------------------------------------------------------------------------	102	let-7a/7b/7c/7d/7e/7f/7i/miR-98
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	------------TGAGGTAGTAGGCCACCG----------------------------------------------------------------	18	9	14	4	12	17	13	9	8	1	4
	------------TGAGGTAGTAGGCCACCGC---------------------------------------------------------------	19	-	3	-	-	-	-	3	1	-	3
	------------TGAGGTAGTAGGCCACCGCA--------------------------------------------------------------	20	-	-	-	-	1	-	-	-	-	-
rat	tcagggtgccagTGAGGTAGTAGGCCACCGcagggaccccgcaccagcagccctgtgagggctagtgttttttgattttgtttggattctttgg
	**********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000022000 ENSRNOG00000016166 Pdlim1
rat	.(((((..((((.((..((.((.(((..(((((((.....((....))..)))))))..))))).))..))..........))))...))))).	0.860 -29.10

rat

chromosome:1:245379295:245379388:-1

block640753 [novel_lenNOK_cloningHIGH_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	0.744	no	no	0.47/0.52	18/21/0.12	0.0	0.0	206	0	3	0	28	11	3arm	1	nd	0.32	2	262	3	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------GGAAUGG---------------------------------------	262	novel
		len	cloning frequencies
			T2S1	T4S1	T4S2
	----------------------------------------------------------------------TGGAATGGCCCTAATGTGT----------------------------	19	-	75	131
	----------------------------------------------------------------------TGGAATGGCCCTAATGTGTC---------------------------	20	1	13	17
	----------------------------------------------------------------------TGGAATGGCCCTAATGTG-----------------------------	18	-	5	19
	----------------------------------------------------------------------TGGAATGGCCCTAATGTGTCC--------------------------	21	-	-	1
rat	gcatgtcttatagcaacaatgtaaagccaggggagaattttaaattttaacttaaatgtagacaagcattTGGAATGGCCCTAATGTGTcctgacattcttgattcaggcagaggtg
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000029986 ENSRNOG00000027309
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000046525 ENSRNOG00000027309
rat	((.(((((.....(((.(((((...((((((((...((((((((((((..((.......))..))).)))))))))..))))..)).))....))))).)))....)))))...)).	0.400 -21.60

rat

chromosome:17:5893592:5893708:1

Same_strand|Intronic_coding|ENSRNOT00000046525|ENSRNOG00000027309 ## Same_strand|Boundary_non-coding|ENSRNOT00000045028|ENSRNOG00000027309 ## ENSRNOG00000027309|protein_coding||

block880993 [novel_lenNOK_cloningHIGH_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	0.456	no	no	0.45/0.61	18/24/0.10	0.0	0.0	58	0	10	0	33	4	5arm	1	nd	0.47	3	90	10	na	na

		reads	miRBase family seed
seed	----------------------------------CCCUGAC--------------------------------------------------------------------------	77	novel
seed	-----------------------------------CCUGACA-------------------------------------------------------------------------	6	novel
seed	--------------------------------------GACACAA----------------------------------------------------------------------	4	novel
seed	---------------------------------CCCCUGA---------------------------------------------------------------------------	3	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	---------------------------------CCCCTGACACAAGTGAGCA---------------------------------------------------------------	19	2	4	2	2	-	1	2	2	58	1
	----------------------------------CCCTGACACAAGTGAGCAT--------------------------------------------------------------	19	-	-	-	-	-	-	-	-	6	-
	-------------------------------------TGACACAAGTGAGCATTCCACA--------------------------------------------------------	22	-	-	-	-	-	-	-	-	4	-
	--------------------------------CCCCCTGACACAAGTGAGCA---------------------------------------------------------------	20	-	-	-	-	1	-	-	-	2	-
	---------------------------------CCCCTGACACAAGTGAGCATTCCA----------------------------------------------------------	24	-	-	-	-	-	-	-	-	2	-
	---------------------------------CCCCTGACACAAGTGAGC----------------------------------------------------------------	18	1	-	-	-	-	-	-	-	-	-
rat	tcggttccttgggcctgcccatcggaatggtgcCCCCTGACACAAGTGAGCAttccacaaggttttcagtgatgggggtgaggaggatgaaggcacagcatcagagggaaaagaa
	*******************************************************************************************************************
rat	((..((((((..((.((((((((.......(((((((...(((...((((....((....))..)))))))..))))))).....))))..))))..))....))))))...)).	0.910 -34.30

rat

chromosome:1:128999591:128999705:-1

intergenic

block1495894 [novel_lenNOK_cloningHIGH_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	0.012	no	no	0.63/0.67	18/19/0.00	0.0	0.0	216	0	10	0	5	23	3arm	2	nd	0.39	2	326	10	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------GGAGACA---------------	326	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	--------------------------------------------------------------------------------TGGAGACACCTGGCAGGG-----	18	25	12	155	61	1	2	4	25	16	8
	--------------------------------------------------------------------------------TGGAGACACCTGGCAGGGA----	19	-	2	10	4	-	-	-	1	-	-
rat	tcccttagtgctgggtttcctcgctgagatggtgtgctttttcctttaaacattcaatttacagggggcacgtggtcaccTGGAGACACCTGGCAGGGaggga
	*******************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000011553 ENSRNOG00000008411 NP_001102063.1
rat	((((((..(((..(((.((..((....(((..((((((...((((.((((.......)))).))))))))))..)))...))..)).)))..)))..))))))	0.990 -38.90

rat

chromosome:3:133119577:133119679:1

block1598862 [novel_lenNOK_cloningHIGH_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	0.096	no	no	0.37/0.48	18/22/0.23	0.0	0.1	28	0	9	0	14	19	3arm	1	68	0.35	3	61	9	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------CCAUGUG--------------------------	54	novel
seed	-----------------------------------------------------------------------------GCCAUGU---------------------------	4	novel
seed	-------------------------------------------------------------------------------CAUGUGA-------------------------	3	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-----------------------------------------------------------------------------GCCATGTGATGATATCAAG---------------	19	3	2	1	12	12	1	-	1	2
	-----------------------------------------------------------------------------GCCATGTGATGATATCAAGG--------------	20	-	-	1	2	4	-	1	1	-
	-----------------------------------------------------------------------------GCCATGTGATGATATCAA----------------	18	-	1	1	2	2	-	1	1	-
	------------------------------------------------------------------------------CCATGTGATGATATCAAG---------------	18	-	-	-	2	1	-	-	-	-
	----------------------------------------------------------------------------AGCCATGTGATGATATCAAG---------------	20	-	-	-	1	1	-	-	-	-
	-----------------------------------------------------------------------------GCCATGTGATGATATCAAGGC-------------	21	-	-	-	2	-	-	-	-	-
	----------------------------------------------------------------------------AGCCATGTGATGATATCAA----------------	19	-	-	-	-	1	-	-	-	-
	----------------------------------------------------------------------------AGCCATGTGATGATATCA-----------------	18	-	-	-	-	-	-	-	1	-
	-----------------------------------------------------------------------------GCCATGTGATGATATCAAGGCT------------	22	-	-	-	1	-	-	-	-	-
rat	ctgatgaaaggtgtctggggtctgggggcaggggctggaaggtgttggttatgtttagcagttcctacattttctcaGCCATGTGATGATATCAAGGctgttgtgattcag
	***************************************************************************************************************
	>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000025889 ENSRNOG00000018771 RGD1562596_predicted
rat	((((........(((((..(((.....(((..(((((((((((((.((...((.....))...)).)))))))).))))).)))...)))..)).))).........))))	0.670 -32.43

rat

chromosome:4:161306707:161306817:-1

block1820997 [novel_lenNOK_cloningHIGH_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	0.110	no	no	0.37/0.48	19/24/0.10	0.0 0.0 0.0	0.0 1.9 0.0	1 7 63	0 0 0	1 4 5	0 0 0	1 10 19	28 18 14	5arm 5arm 5arm	1 1 2	nd nd nd	0.43 0.47 0.37	5 5 3	83	7	na	na

		reads	miRBase family seed
seed	--------------------ACCAUAG----------------------------------------------------------------------------------	73	novel
seed	-----------CCCAAAA-------------------------------------------------------------------------------------------	7	novel
seed	-------------------------AGCUAGA-----------------------------------------------------------------------------	1	novel
seed	-----------------------AUAGCUA-------------------------------------------------------------------------------	1	novel
seed	--GUCCCUG----------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T4S1	T4S2	T5S1	T5S2
	-------------------TACCATAGCTAGACATATG-----------------------------------------------------------------------	19	3	3	-	-	1	63	1
	----------TCCCAAAACTACCATAGCT--------------------------------------------------------------------------------	19	1	-	1	-	-	2	-
	-------------------TACCATAGCTAGACATATGCCTC-------------------------------------------------------------------	23	-	-	-	-	-	2	-
	----------TCCCAAAACTACCATAGCTAGAC----------------------------------------------------------------------------	23	-	-	-	1	-	1	-
	-TGTCCCTGTTCCCAAAACTACCA-------------------------------------------------------------------------------------	23	-	-	-	-	-	1	-
	----------------------CATAGCTAGACATATGCCTCAC-----------------------------------------------------------------	22	-	-	-	-	-	1	-
	----------TCCCAAAACTACCATAGCTAGACA---------------------------------------------------------------------------	24	1	-	-	-	-	-	-
	------------------------TAGCTAGACATATGCCTCACT----------------------------------------------------------------	21	-	-	-	-	-	1	-
rat	atgtccctgttcccaaaacTACCATAGCTAGACATATGcctcactcactctgccattcccccagacccaaaatgcataagctggcctaggcaggaggattggagggcat
	*************************************************************************************************************
rat	((((((((..(((.....((.((...(((((...(((((.........((((.........))))........)))))..)))))...)).))..)))..)).))))))	0.920 -26.33

rat

chromosome:5:25627641:25627749:1

intergenic

novel_lenNOK_5varHIGH_nonpairedHIGH (146 loci)

block8802 [novel_lenNOK_5varHIGH_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	0.937	no	no	0.68/0.68	19/22/0.50	1.5	0.0	2	0	1	0	12	5	3arm	1	nd	0.32	2	2	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------CAGCCGC-----------------------	1	novel
seed	-----------------------------------------------CUGCAGC--------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------------------------------------------GCAGCCGCGCACAGAATGC------------	19	1
	----------------------------------------------GCTGCAGCCGCGCACAGAATGC------------	22	1
rat	tcccggggttcagctggtgtctcgcaacggccgtcggtgtagagctGCTGCAGCCGCGCACAGAATGCgccctcggcggc
	********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000049840 ENSRNOG00000029838
rat	(((((((((.((.(((((((((.(((.((((..((......)))))).)))))..)))).)))..)).)))).))).)).	0.420 -28.20