miR-Intess: classification

other hairpins

novel_cloningOK_nonpairedHIGH_bulgeHIGH (50 loci)

block1601281 [novel_cloningOK_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	0.013	no	no	0.37/0.53	19/21/0.73	0.8	1.1	13	0	3	0	12	4	3arm	6	nd	0.45	4	15	3	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------AAACACC------------------------	8	novel
seed	---------------------------------------------------------UAAACAC-------------------------	3	novel
seed	------------------------------------------------------CCUUAAA----------------------------	2	novel
seed	--------------------------------------------------------------ACCAUCU--------------------	1	novel
seed	----------------------------------------------------------------CAUCUCU------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	---------------------------------------------------------TAAACACCATCTCTGTTCCA------------	20	3	-	5
	--------------------------------------------------------TTAAACACCATCTCTGTTC--------------	19	-	-	3
	-----------------------------------------------------TCCTTAAACACCATCTCTGT----------------	20	-	-	2
	-------------------------------------------------------------CACCATCTCTGTTCCATCCTG-------	21	-	-	1
	---------------------------------------------------------------CCATCTCTGTTCCATCCTG-------	19	-	1	-
rat	gaaacgctaggtcttgatgctcctgaggggtcttcttcagagccttgccgggcTCCTTAAACACCATCTCTGTTCCAtcctggcatttc
	*****************************************************************************************
rat	((((.((((((...((..((....(((((((........((((((....)))))).......))).)))).))..)).)))))).))))	0.980 -28.16

rat

chromosome:4:165027264:165027352:-1

intergenic

block1601330 [novel_cloningOK_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	0.013	no	no	0.37/0.53	19/21/0.73	0.8	1.1	13	0	3	0	12	4	3arm	6	nd	0.45	4	15	3	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------AAACACC------------------------	8	novel
seed	---------------------------------------------------------UAAACAC-------------------------	3	novel
seed	------------------------------------------------------CCUUAAA----------------------------	2	novel
seed	--------------------------------------------------------------ACCAUCU--------------------	1	novel
seed	----------------------------------------------------------------CAUCUCU------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	---------------------------------------------------------TAAACACCATCTCTGTTCCA------------	20	3	-	5
	--------------------------------------------------------TTAAACACCATCTCTGTTC--------------	19	-	-	3
	-----------------------------------------------------TCCTTAAACACCATCTCTGT----------------	20	-	-	2
	-------------------------------------------------------------CACCATCTCTGTTCCATCCTG-------	21	-	-	1
	---------------------------------------------------------------CCATCTCTGTTCCATCCTG-------	19	-	1	-
rat	gaaacgctaggtcttgatgctcctgaggggtcttcttcagagccttgccgggcTCCTTAAACACCATCTCTGTTCCAtcctggcatttc
	*****************************************************************************************
rat	((((.((((((...((..((....(((((((........((((((....)))))).......))).)))).))..)).)))))).))))	0.980 -28.16

rat

chromosome:4:165135474:165135562:-1

intergenic

block1696804 [novel_cloningOK_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	0.170	no	no	0.26/0.30	19/21/0.82	0.0	0.6	18	0	3	0	6	1	3arm	1	nd	0.33	4	22	3	na	na

		reads	miRBase family seed
seed	------------------------------------CCCAAGU-------------------	22	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	-----------------------------------TCCCAAGTTATATGATAATGT------	21	1	2	6
	-----------------------------------TCCCAAGTTATATGATAATG-------	20	1	-	8
	-----------------------------------TCCCAAGTTATATGATAAT--------	19	-	-	4
rat	gtatgtatgtttaatattatggggtttgcagaacaTCCCAAGTTATATGATAATGTatctgc
	**************************************************************
rat	(((.(((((((..((((..((((((.........))))))....))))...))))))).)))	1.000 -11.10

rat

chromosome:4:164290714:164290775:1

intergenic

block1697261 [novel_cloningOK_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	0.306	no	no	0.32/0.37	19/28/0.83	0.0	0.0	7	0	3	0	6	5	5arm	1	nd	0.50	5	12	3	na	na

		reads	miRBase family seed
seed	-------CAGUAAA------------------------------------------	10	novel
seed	--------AGUAAAC-----------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	------TCAGTAAACTTCTTCTCACT------------------------------	20	1	1	7
	-------CAGTAAACTTCTTCTCACTTAT---------------------------	22	-	-	1
	------TCAGTAAACTTCTTCTCACTTATAGCCT----------------------	28	-	-	1
	-------CAGTAAACTTCTTCTCACT------------------------------	19	-	-	1
rat	ccaccaTCAGTAAACTTCTTCTCACTtatagcctgctatggaggatactctagggg
	********************************************************
rat	((.((...((((....((((((.....((((....))))))))))))))...))))	0.950 -10.30

rat

chromosome:4:164795545:164795600:1

intergenic

block1697591 [novel_cloningOK_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	0.013	no	no	0.37/0.53	19/21/0.73	0.8	1.1	13	0	3	0	12	4	3arm	6	nd	0.45	4	15	3	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------AAACACC------------------------	8	novel
seed	---------------------------------------------------------UAAACAC-------------------------	3	novel
seed	------------------------------------------------------CCUUAAA----------------------------	2	novel
seed	--------------------------------------------------------------ACCAUCU--------------------	1	novel
seed	----------------------------------------------------------------CAUCUCU------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	---------------------------------------------------------TAAACACCATCTCTGTTCCA------------	20	3	-	5
	--------------------------------------------------------TTAAACACCATCTCTGTTC--------------	19	-	-	3
	-----------------------------------------------------TCCTTAAACACCATCTCTGT----------------	20	-	-	2
	-------------------------------------------------------------CACCATCTCTGTTCCATCCTG-------	21	-	-	1
	---------------------------------------------------------------CCATCTCTGTTCCATCCTG-------	19	-	1	-
rat	gaaacgctaggtcttgatgctcctgaggggtcttcttcagagccttgccgggcTCCTTAAACACCATCTCTGTTCCAtcctggcatttc
	*****************************************************************************************
rat	((((.((((((...((..((....(((((((........((((((....)))))).......))).)))).))..)).)))))).))))	0.980 -28.16

rat

chromosome:4:165191351:165191439:1

intergenic

block1888509 [novel_cloningOK_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	0.278	no	no	0.43/0.47	19/21/0.78	0.6	0.6	18	0	9	0	11	8	5arm	1	5	0.38	4	18	9	na	na

		reads	miRBase family seed
seed	------------GGCACUU-------------------------------------------------------------	10	novel
seed	-------------GCACUUA------------------------------------------------------------	8	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-----------TGGCACTTACGTACAGTTTCT------------------------------------------------	21	1	-	2	1	1	-	1	-	1
	------------GGCACTTACGTACAGTTTC-------------------------------------------------	19	-	-	-	-	3	-	1	-	-
	------------GGCACTTACGTACAGTTTCT------------------------------------------------	20	-	-	-	2	1	1	-	-	-
	-----------TGGCACTTACGTACAGTTTC-------------------------------------------------	20	-	1	-	-	-	-	-	1	1
rat	ttttggacagaTGGCACTTACGTACAGTTTCTtccaggacaagcacgttgaagaggtgcggaagaacaaagaatccaaag
	********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000022574 ENSRNOG00000016810 Stmn1
rat	.((((((....((...(((.(((((....(((((...(((......)))))))).))))).)))..)).....)))))).	0.410 -17.50

rat

chromosome:5:153231541:153231620:1

Same_strand|Intronic_coding|ENSRNOT00000022574|ENSRNOG00000016810 ## ENSRNOG00000016810|protein_coding|Stmn1|Stathmin (Phosphoprotein p19) (pp19) (Oncoprotein 18) (Op18) (Leukemia-associated phosphoprotein p18) (pp17) (Prosolin) (Metablastin) (Pr22 protein). [Source:UniProtKB/Swiss-Prot;Acc:P13668]

novel_lenNOK_mirtron_randfoldOK (50 loci)

block6231 [novel_lenNOK_mirtron_randfoldOK]

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	0.010	no	no	0.44/0.55	18/24/0.60	0.0	2.6	5	0	3	0	19	12	5arm	1	1	0.00	0	5	3	na	na

		reads	miRBase family seed
seed	--------------------ACCCCUU---------------------------------------------------------------------------------------------	5	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2
	-------------------TACCCCTTGTTTTCTGTGGCCGCA-----------------------------------------------------------------------------	24	-	-	2
	-------------------TACCCCTTGTTTTCTGTG-----------------------------------------------------------------------------------	18	1	-	-
	-------------------TACCCCTTGTTTTCTGTGGCCG-------------------------------------------------------------------------------	22	-	1	-
	-------------------TACCCCTTGTTTTCTGTGG----------------------------------------------------------------------------------	19	1	-	-
rat	ggagctctgagcactgtgcTACCCCTTGTTTTCTGTGGCCGCAggtggatttggtgttgacttctccagggccacggaggacgtgggttcgggggtcgccctagtggcccggaggctcct
	************************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000008537 ENSRNOG00000006460 RGD1304601
rat	(((((((((.((((((.((.((((((((((((((((((((.....((((...(((....)))..)))).)))))))))))))).......)))))).))..)))).)).))))).)))).	0.550 -56.91

rat

chromosome:10:13414858:13414977:-1

block38396 [novel_lenNOK_mirtron_randfoldOK]

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	0.56/0.56	18/18/0.00	0.0	0.0	1	0	1	0	18	8	3arm	1	0	0.11	1	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------CAGACUC----------------------------	1	novel
		len	cloning frequencies
			T4S1
	--------------------------------------------------------------CCAGACTCCTCTCTTCAG------------------	18	1
rat	ctttcctagccctggaggcctgaggggcggagcctagtggagataaggctttttgcttagtcCCAGACTCCTCTCTTCAGgctccagtacagcagaga
	**************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000035894 ENSRNOG00000004276 NP_001101762.1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000005644 ENSRNOG00000004276 NP_001101762.1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000055534 ENSRNOG00000004276 NP_001101762.1
rat	((((.((....(((((.((((((((((.((((.((...((.(((.((((.....)))).))))))).)))).)))))))))))))))...)).)))).	1.000 -43.70

rat

chromosome:10:83741652:83741749:-1

block41952 [novel_lenNOK_mirtron_randfoldOK]

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	0.56/0.58	18/21/0.33	0.3	0.7	3	0	3	0	26	0	3arm	1	0	0.24	2	3	3	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------UCAGACC---------------------------------------	2	novel
seed	--------------------------------------------------------CAGACCC--------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T4S1
	------------------------------------------------------CTCAGACCCTTGCTTCCTC----------------------------	19	-	1	-
	------------------------------------------------------CTCAGACCCTTGCTTCCTCAG--------------------------	21	-	-	1
	-------------------------------------------------------TCAGACCCTTGCTTCCTC----------------------------	18	1	-	-
rat	tgctgccatttactgaccatggtctgggggggtggttgggcctgagctggctccCTCAGACCCTTGCTTCCTCAGatcatcaagaagttgattgagcgcaa
	*****************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000055250 ENSRNOG00000018364 NP_001100520.1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000025033 ENSRNOG00000018364 NP_001100520.1
rat	(((.((((.(((((....(((((((((((..((....(((.(((((........))))).)))..))..))))))))))).....))).)).)).))))).	1.000 -41.00

rat

chromosome:10:89643408:89643508:-1

block56328 [novel_lenNOK_mirtron_randfoldOK]

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	0.39/0.42	18/19/0.00	0.0	0.3	6	0	2	0	23	6	3arm	1	0	0.21	3	6	2	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------UGGGAUU----------------------------------	6	novel
		len	cloning frequencies
			T1S1	T1S2
	-----------------------------------------------------------------TTGGGATTTTTCTTGGCAG-----------------------	19	2	2
	-----------------------------------------------------------------TTGGGATTTTTCTTGGCA------------------------	18	1	1
rat	tcatctaaaaataagacgtgcatgtagccaagaacacaaccttccaagagtaactttctgtgatcTTGGGATTTTTCTTGGCAGcaattcaaccaacgaagggatga
	***********************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000044626 ENSRNOG00000033942 Grin2a
rat	((((((............((..(((.((((((((.......((((((((...((.....))..))))))))...)))))))).)))...))..........))))))	0.480 -28.55