miR-Intess: classification

other hairpins

novel_lenNOK_cloningOK_loopOverlap_nonpairedHIGH_bulgeHIGH (282 loci)

block1420450 [novel_lenNOK_cloningOK_loopOverlap_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	0.217	no	no	0.33/0.33	18/18/0.00	0.0	0.0	17	0	6	0	40	-4	5arm_loop_3arm	1	nd	0.56	4	18	6	na	na

		reads	miRBase family seed
seed	-----------------------------------------GGAAAGU-----------------------------------------------------	18	novel
		len	cloning frequencies
			T2S1	T2S2	T4S1	T4S2	T5S1	T5S2
	----------------------------------------AGGAAAGTATTACCTTTG-------------------------------------------	18	4	2	5	2	1	4
rat	agctaaaagtatccaagatttaaaacaaaacaataaaactAGGAAAGTATTACCTTTGgggctgccacctatttattgaattgttctatttgaatgtagct
	*****************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000022861 ENSRNOG00000016744 NP_001101267.1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000022660 ENSRNOG00000016744 NP_001101267.1
rat	(((((....(((.((((...((.(((((..(((((((..((((...(((...((....))..)))..)))))))))))..))))).)))))).))))))))	0.890 -16.70

rat

chromosome:3:151798674:151798774:-1

block1470157 [novel_lenNOK_cloningOK_loopOverlap_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	0.390	no	no	0.43/0.54	18/24/0.65	0.7 0.0 1.0	1.3 0.0 1.5	3 4 8	0 0 0	2 2 4	0 0 0	30 25 11	-6 3 8	3arm_loop 3arm 3arm	2 2 2	nd nd nd	0.56 0.53 0.42	5 5 6	20	4	na	na

		reads	miRBase family seed
seed	------------------------------------------------------GACAACG---------------------------	9	novel
seed	---------------------------------------------CCCAUCU------------------------------------	4	novel
seed	--------------------------------------------------CUUUGAC-------------------------------	3	novel
seed	-------------------------------------GUGAGCU--------------------------------------------	2	novel
seed	-----------------------------------------------------UGACAAC----------------------------	1	novel
seed	------------------------------------UGUGAGC---------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T2S2	T4S2	T5S1
	-----------------------------------------------------TGACAACGCCGCTCAAGATAGCCA-----------	24	1	-	1	6
	--------------------------------------------TCCCATCTTTGACAACGCC-------------------------	19	1	-	-	3
	-------------------------------------------------TCTTTGACAACGCCGCTCAAGA-----------------	22	-	1	-	2
	----------------------------------------------------TTGACAACGCCGCTCAAGA-----------------	19	-	1	-	-
	-----------------------------------TTGTGAGCTTCCCATCTTTGACA------------------------------	23	-	-	-	1
	------------------------------------TGTGAGCTTCCCATCTTT----------------------------------	18	-	-	-	1
	------------------------------------TGTGAGCTTCCCATCTTTGACA------------------------------	22	-	-	1	-
	-----------------------------------------------------TGACAACGCCGCTCAAGAT----------------	19	-	-	-	1
rat	cttggggatggatgatgtggtttcttggtaagcccttgtgagctTCCCATCTTTGACAACGCCGCTCAAGATAGCCAttcaccttgga
	****************************************************************************************
rat	...((((((((.(((.(((((.((.(((.((((........)))).))).....))....))))))))......)))))).)).....	0.920 -22.00

rat

chromosome:3:76968800:76968887:1

intergenic

block1507616 [novel_lenNOK_cloningOK_loopOverlap_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	0.293	no	no	0.61/0.63	18/19/0.00	0.0	0.2	8	0	4	0	24	-2	5arm_loop	1	nd	0.39	4	13	4	na	na

		reads	miRBase family seed
seed	-------------------------UUUCAGG------------------------------------------------	13	novel
		len	cloning frequencies
			T2S2	T3S1	T4S1	T5S1
	------------------------CTTTCAGGATTCGGGGGG--------------------------------------	18	1	1	6	1
	------------------------CTTTCAGGATTCGGGGGGC-------------------------------------	19	1	-	2	1
rat	tttacttcagggaattctcggaaaCTTTCAGGATTCGGGGGGCttccctgggaggagacgagagaggattagaagcggac
	********************************************************************************
rat	((..((((....(((((((......((((....(((.((((....)))).))).)))).....))))))).))))..)).	0.970 -21.90

rat

chromosome:3:154485274:154485353:1

intergenic

block1575114 [novel_lenNOK_cloningOK_loopOverlap_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	0.062	no	no	0.37/0.47	19/22/0.23	0.0	0.0	8	0	4	0	14	-5	3arm_loop	1	nd	0.37	4	13	4	na	na

		reads	miRBase family seed
seed	------------------------------ACCACAU-------------------------	9	novel
seed	----------------------------GUACCAC---------------------------	2	novel
seed	-------------------------------CCACAUG------------------------	1	novel
seed	-------------------------ACUGUAC------------------------------	1	novel
		len	cloning frequencies
			T1S2	T2S1	T2S2	T5S1
	-----------------------------TACCACATGTAGTATCTGG--------------	19	4	-	-	4
	---------------------------TGTACCACATGTAGTATCTG---------------	20	-	1	-	1
	-----------------------------TACCACATGTAGTATCTGGGCA-----------	22	-	-	1	-
	------------------------TACTGTACCACATGTAGTA-------------------	19	-	-	-	1
	------------------------------ACCACATGTAGTATCTGGG-------------	19	-	-	-	1
rat	atggacaatgtcacgtgtaggtagtactgTACCACATGTAGTATCTGGgcaaacatccttca
	**************************************************************
	------------------------------------------------------------------------	ENSRNOT00000057549 ENSRNOG00000037878
rat	.((((..((((...((.((((((.(((((.....)).))).)))))).))..))))..))))	0.980 -15.90

rat

chromosome:4:119335693:119335754:-1

Opposite_strand|Intronic_coding|ENSRNOT00000057549|ENSRNOG00000037878 ## ENSRNOG00000037878|protein_coding||

block914179 [novel_lenNOK_cloningOK_loopOverlap_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	0.045	no	no	0.67/0.72	18/19/0.00	0.3	0.1	10	0	4	0	10	-5	5arm_loop_3arm	1	nd	0.44	4	10	4	na	na

		reads	miRBase family seed
seed	-----------CGAGUCC----------------------------------------	7	novel
seed	------------GAGUCCC---------------------------------------	3	novel
		len	cloning frequencies
			T2S1	T2S2	T4S1	T5S1
	----------TCGAGTCCCCGCAGTACCC-----------------------------	19	2	1	-	3
	-----------CGAGTCCCCGCAGTACCC-----------------------------	18	2	-	-	1
	----------TCGAGTCCCCGCAGTACC------------------------------	18	-	-	1	-
rat	gggccggggtTCGAGTCCCCGCAGTACCCtgcttccttcctgctctggctccaggcct
	**********************************************************
rat	((((((((((..((((....((((....)))).........))))..))))).)))))	1.000 -23.32

rat

chromosome:1:208456455:208456512:-1

intergenic

novel_randfoldOK_nonpairedHIGH (271 loci)

block1513 [novel_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	0.002	no	no	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	15	18	3arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------CUCGGCU----------------------------	1	novel
		len	cloning frequencies
			T3S2
	-------------------------------------------------------------------------CCTCGGCTTCTTTTCAGACTC---------------	21	1
rat	ggctgtaggtgcagggtagagcagtgttgcccagacagtagaggtgctgggggagcccagcacatacttgctgCCTCGGCTTCTTTTCAGACTCaccttttcagcagcc
	*************************************************************************************************************
rat	(((((((((((.((....(((.((....(((.((.((((((..((((((((....))))))))....)))))).)).)))..)).)))...))))))).....))))))	0.950 -47.80

rat

chromosome:10:3194754:3194862:-1

intergenic

block6427 [novel_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	0.004	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	18	16	3arm	1	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------CCUUUUG------------------------------	1	novel
		len	cloning frequencies
			T4S1
	------------------------------------------------------------------------TCCTTTTGCGGGAAGGGGAG------------------	20	1
rat	agccccacacttctgttctctgccacatggaggcagtctgaggcccaagagtgaccaccaggcctcactgccTCCTTTTGCGGGAAGGGGAGcagctagaggacatgctg
	**************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000012203 ENSRNOG00000009224 LOC681124
rat	(((......((((((((((((.((.((.(((((((((..((((((.....((....))..)))))))))))))))...)).))...)))))))))...))).....))).	0.970 -46.50

rat

chromosome:10:13699061:13699170:-1

block18179 [novel_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	0.002	no	no	0.48/0.48	23/23/1.00	0.0	0.0	1	0	1	0	5	18	3arm	1	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------UUUUUCC--------------------	1	novel
		len	cloning frequencies
			T2S1
	----------------------------------------------------------------------CTTTTTCCTTTCCTCCCTCCCTT-----	23	1
rat	cctctgaggtgggaggtacacggtcaaaggaaccagaaaaggacggctccctctgtacctcctcctcttcCTTTTTCCTTTCCTCCCTCCCTTccagg
	**************************************************************************************************
rat	(((..((((.((((((.....((..(((((((...((..(((((((......)))).)))..))...)))))))..))...))))))..))))..)))	1.000 -34.70

rat

chromosome:10:40807166:40807263:-1

intergenic ## {Repeats: polypurine 3 26 -1 class=Low_complexity,polypurine 1 49 -1 class=Low_complexity,dust 40807171 40807194 0 class=dust}

block21855 [novel_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	0.007	no	no	0.20/0.20	20/20/1.00	0.0	0.0	1	0	1	0	5	35	5arm	1	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	------UCUUUUU---------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	-----TTCTTTTTTATAATGAAGGA---------------------------------------------------------------------------------------------	20	1
rat	cagatTTCTTTTTTATAATGAAGGAtaaatagctaattccagccttttctgtgctatcaaaaaaaaaattgactaattaaaaaaaaaggctgagaaacttctaatgatagagaaactg
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000057682 ENSRNOG00000002277 NCOR1_RAT
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000057681 ENSRNOG00000002277 NCOR1_RAT
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000057680 ENSRNOG00000002277 NCOR1_RAT
rat	(((.(((((((.((((...((((.............((((((((((((........((((........))))...........))))))))).))).))))..)))).))))))))))	0.540 -22.85

rat

chromosome:10:48571444:48571561:-1

block23400 [novel_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	0.005	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	27	7	5arm	1	nd	0.35	2	1	1	na	na

		reads	miRBase family seed
seed	----------------------------UGCUUCA---------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	---------------------------CTGCTTCATCCTTCATTCCT---------------------------------------------------------------------	20	1
rat	tgcctttggaaagttcttgactgccacCTGCTTCATCCTTCATTCCTtccacagatgtctgtggactgaacccaaggtttgaaagggctgcctatcacttgaaccctagaaggtac
	********************************************************************************************************************
rat	(((((((.....((((.(((..((..(((..((((.((((..(((..(((((((....)))))))..)))...))))..)))).)))..))...)))...))))....))))))).	1.000 -36.60