miR-Intess: classification

other hairpins

novel_Multihit_randfoldOK_nonpairedHIGH (141 loci)

block1591292 [novel_Multihit_randfoldOK_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	0.009	no	no	0.50/0.50	20/20/1.00	0.0	0.0	3	0	1	0	19	16	3arm	22	nd	0.35	3	3	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------ACUCAUG-------------------------------	3	novel
		len	cloning frequencies
			T2S1
	-------------------------------------------------------------------------------GACTCATGAAGACTCGGCAA-------------------	20	3
rat	gagccatgacctttggagccctgtcttgctatctcatcagggcctaggttcatcctagtcctgcttttctcagaacctgGACTCATGAAGACTCGGCAAtcctgctccctggaggctc
	**********************************************************************************************************************
rat	(((((....((...(((((......(((((...((.((((((.((((((((.....((.....)).......)))))))).))).))).))...)))))....)))))..)).)))))	0.730 -38.00

rat

chromosome:4:150584598:150584715:-1

intergenic

block1591465 [novel_Multihit_randfoldOK_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	0.009	no	no	0.50/0.50	20/20/1.00	0.0	0.0	3	0	1	0	19	16	3arm	22	nd	0.35	3	3	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------ACUCAUG-------------------------------	3	novel
		len	cloning frequencies
			T2S1
	-------------------------------------------------------------------------------GACTCATGAAGACTCGGCAA-------------------	20	3
rat	gagccatgacctttggagccctgtcttgctatctcatcagggcctaggttcatcctagtcctgcttttctcagaacctgGACTCATGAAGACTCGGCAAtcctgctccctggaggctc
	**********************************************************************************************************************
rat	(((((....((...(((((......(((((...((.((((((.((((((((.....((.....)).......)))))))).))).))).))...)))))....)))))..)).)))))	0.730 -38.00

rat

chromosome:4:150628907:150629024:-1

intergenic

block1611414 [novel_Multihit_randfoldOK_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	0.006	no	no	0.60/0.60	20/20/1.00	0.0	0.0	2	0	1	0	28	9	5arm	32	nd	0.40	3	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------GAGCCGG----------------------------------------------------------------------------------	1	novel
seed	-------------------------------------------------------------GAGCCGG--------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----------------------------TGAGCCGGGAACACTGTGAG----------------------------------------------------------------------	20	1
	------------------------------------------------------------TGAGCCGGGAACACTGTGAG--------------------------------------	20	1
rat	ctgagaacactgtgagctgagaacattgTGAGCCGGGAACACTGTGAGccgggaacactgTGAGCCGGGAACACTGTGAGccggaaacactgtgagctgagaacactgtgagctgaga
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021306 ENSRNOG00000015910 Ifltd1_predicted
rat	((.((..(((.(((..((.((..(((.(((..((((...(((.(((..((.((..((...))..)).))..))).)))..))))...))).)))..)).))..))).)))..)).)).	1.000 -42.30

rat

chromosome:4:183059996:183060113:-1

Same_strand|Intronic_coding|ENSRNOT00000021306|ENSRNOG00000015910 ## ENSRNOG00000015910|protein_coding|Ifltd1_predicted| ## {Repeats: trf 3218 3238 0 class=trf}

block1611418 [novel_Multihit_randfoldOK_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	0.001	no	no	0.60/0.60	20/20/1.00	0.0	0.0	2	0	1	0	5	30	5arm	32	nd	0.40	2	2	1	na	na

		reads	miRBase family seed
seed	------GAGCCGG-----------------------------------------------------------------------------------------------------------	1	novel
seed	--------------------------------------------------------------------------------------GAGCCGG---------------------------	1	novel
		len	cloning frequencies
			T5S1
	-----TGAGCCGGGAACACTGTGAG-----------------------------------------------------------------------------------------------	20	1
	-------------------------------------------------------------------------------------TGAGCCGGGAACACTGTGAG---------------	20	1
rat	cactgTGAGCCGGGAACACTGTGAGctgggaacacagtgagctgagaacattgtgagctgagaacactgtgagctgagaacactgTGAGCCGGGAACACTGTGAGctgggaacacagtga
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021306 ENSRNOG00000015910 Ifltd1_predicted
rat	(((((((..((.((..(((.(((..((.((..(((((((..((.((..(((.(((.........))).)))..)).))..)))))))..)).))..))).)))..)).))..))))))).	1.000 -53.10

rat

chromosome:4:183060802:183060921:-1

Same_strand|Intronic_coding|ENSRNOT00000021306|ENSRNOG00000015910 ## ENSRNOG00000015910|protein_coding|Ifltd1_predicted| ## {Repeats: trf 3985 4005 0 class=trf}

block1641648 [novel_Multihit_randfoldOK_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	0.001	no	no	0.57/0.57	21/21/1.00	0.0	0.0	2	0	1	0	34	3	5arm	110	nd	0.38	3	2	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------UUCAGUC-------------------------------------------	1	novel
seed	-----------------------------------UUCAGUC--------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-----------------------------------------------------------------CTTCAGTCAGGCTCACTGGCT------------------------------	21	1
	----------------------------------CTTCAGTCAGGCTCACTGGCT-------------------------------------------------------------	21	1
rat	gctcttcagcctggctcactggctagcctctgctCTTCAGTCAGGCTCACTGGCTagcttctgctCTTCAGTCAGGCTCACTGGCTagcctctgctcttcagtcaggctcactggc
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000051405 ENSRNOG00000032252 LOC681850
rat	(((....(((((((((((..((((((((..........(((.((.((.(((((..(((....)))..))))).)).)).)))))))))))..))......)))))))))....)))	0.440 -45.50

rat

chromosome:4:57849369:57849484:1

Opposite_strand|Boundary_non-coding|ENSRNOT00000047545|ENSRNOG00000032252 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000051405|ENSRNOG00000032252 ## ENSRNOG00000032252|protein_coding|LOC681850|LOC501224 protein. [Source:UniProtKB/TrEMBL;Acc:Q0P5Q7] ## {Repeats: trf 93 114 0 class=trf}

novel_lenNOK_mirtron_nonpairedHIGH (140 loci)

block6794 [novel_lenNOK_mirtron_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	0.347	no	no	0.53/0.53	19/19/0.00	0.0	0.0	1	0	1	0	16	7	5arm	1	1	0.32	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------UGUGUAG----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----------------GTGTGTAGTCTGTCCAGTG-----------------------------------------------------------------	19	1
rat	cggaacgtcagtattgGTGTGTAGTCTGTCCAGTGccccacctgccatcccatccctggtgagaggccatgtacccgctgctcactgcctctcttgtcca
	****************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000045577 ENSRNOG00000033568 Mapk8ip3
	>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000050727 ENSRNOG00000033568 Mapk8ip3
	>>>>>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042066 ENSRNOG00000033568 Mapk8ip3
rat	.((.(((..((...(((((.(((((..((.((..(((.((((...............))))...)))..)).))..))))).)))))...))..))))).	0.750 -26.36

rat

chromosome:10:14163374:14163473:-1

block21553 [novel_lenNOK_mirtron_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	0.314	no	no	0.32/0.32	19/19/0.00	0.0	0.0	2	0	2	0	9	15	5arm	1	4	0.32	3	2	2	na	na

		reads	miRBase family seed
seed	----------UCAGGUA------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S1	T5S2
	---------TTCAGGTACTTTATTTTGG-------------------------------------------------------------------	19	1	1
rat	tctatgatgTTCAGGTACTTTATTTTGGattttcttttaaagttaaaattttaaaaaagttcctttcatgtggatttaagtgaattttaatggaa
	***********************************************************************************************
	>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003792 ENSRNOG00000002763 Ulk2
rat	(((((...(((((..((.(((((...(((.(((.(((((((((....)))))))))))).)))......)))))..))..)))))....))))).	0.580 -14.30

rat

chromosome:10:48005625:48005719:-1

block25449 [novel_lenNOK_mirtron_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	0.655	no	no	0.56/0.56	18/18/0.00	0.0	0.0	1	0	1	0	32	7	3arm	1	2	0.50	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------CAGGAGA------------------------------------------	1	novel
		len	cloning frequencies
			T2S1
	--------------------------------------------------------------------TCAGGAGAGACAACGGAG--------------------------------	18	1
rat	tggtaaaatggaccagacttcagcctccatcctctgtcgaaggccccaacaacgtgcaacttaccaggTCAGGAGAGACAACGGAGaagactggagattaggatcaaagaaaggccag
	**********************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000032481 ENSRNOG00000027628 DERP6
rat	((((......((((.((((((((.((...(((..((((.....((...((...(((.....)))...))..))...))))..)))..)).)))))).)).)).))........)))).	0.790 -25.54

rat

chromosome:10:56816404:56816521:-1

block29919 [novel_lenNOK_mirtron_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	0.592	no	no	0.37/0.37	19/19/0.00	0.0	0.0	1	0	1	0	16	18	3arm	1	1	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------UGAGUGC---------------------------	1	novel
		len	cloning frequencies
			T5S1
	------------------------------------------------------------------------GTGAGTGCAACATGAATTA----------------	19	1
rat	agctactgcgtcttacgatacgcgtgtgtatgtctgggacccacacattggagacactctgatggagtttggGTGAGTGCAACATGAATTAtttcagtcagtaactc
	***********************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000017949 ENSRNOG00000012929 Wsb1
rat	((.(((((...((...((((..(((((((((..((.(((((((((...((....))...)).))).)))).))...))))).))))...))))..)).))))).)).	0.480 -26.00

rat

chromosome:10:65430221:65430327:-1

block36051 [novel_lenNOK_mirtron_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	0.242	no	no	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	22	23	5arm	1	4	0.37	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------ACCCUGC----------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----------------------GACCCTGCGAGACAGACAA-----------------------------------------------------------------------	19	1
rat	gtgcaggaaatttaaaggcttgGACCCTGCGAGACAGACAAaccggtgccaacgtgcgcggacgccgccgccgccaccgccgctggagtccgcagggcagagccggctgtgc
	****************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000032388 ENSRNOG00000023683 Nog
rat	((((((..........(((((...(((((((.(((...((...(((((.....(((.((((.((....)))))))))))))).))..))))))))))..)))))..))))))	0.960 -46.30

rat

chromosome:10:77691079:77691190:-1

Same_strand|Boundary_non-coding|ENSRNOT00000032388|ENSRNOG00000023683 ## ENSRNOG00000023683|protein_coding|Nog|Noggin precursor (Fragment). [Source:UniProtKB/Swiss-Prot;Acc:Q62809] ## {SimpF: oe = 0.76 -1 CpG}

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miR-Intess™