miR-Intess: classification

other hairpins

novel_loopOverlap_nonpairedHIGH_bulgeHIGH (2749 loci)

block1768147 [novel_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	0.207	no	no	0.62/0.62	21/21/1.00	0.0	0.0	1	0	1	0	17	-4	5arm_loop	4	nd	0.48	5	1	1	na	na

		reads	miRBase family seed
seed	------------------GGCCUUC--------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	-----------------GGGCCTTCTGCATGCTACCTC-------------------------------------	21	1
rat	gctacctcacctagtcaGGGCCTTCTGCATGCTACCTCacctagccagggccttctgcacgctacctcacctagc
	***************************************************************************
	-------------------------------------------------------------------------------------	ENSRNOT00000011767 ENSRNOG00000008907 LOC298250
rat	((((.......(((((((((((..(((...((((.......)))))))))))..)))...)))).......))))	0.820 -15.44

rat

chromosome:5:116230500:116230574:-1

Opposite_strand|Intronic_coding|ENSRNOT00000011767|ENSRNOG00000008907 ## ENSRNOG00000008907|protein_coding|LOC298250|Putative uncharacterized protein LOC298250. [Source:UniProtKB/TrEMBL;Acc:Q5FVC3] ## {Repeats: trf 98 119 0 class=trf}

block1768148 [novel_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	0.207	no	no	0.62/0.62	21/21/1.00	0.0	0.0	1	0	1	0	17	-4	5arm_loop	4	nd	0.48	5	1	1	na	na

		reads	miRBase family seed
seed	------------------GGCCUUC--------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	-----------------GGGCCTTCTGCATGCTACCTC-------------------------------------	21	1
rat	gctacctcacctagtcaGGGCCTTCTGCATGCTACCTCacctagccagggccttctgcacgctacctcacctagc
	***************************************************************************
	-------------------------------------------------------------------------------------	ENSRNOT00000011767 ENSRNOG00000008907 LOC298250
rat	((((.......(((((((((((..(((...((((.......)))))))))))..)))...)))).......))))	0.820 -15.44

rat

chromosome:5:116230500:116230574:-1

block1886758 [novel_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	0.477	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	12	-4	5arm_loop	1	nd	0.48	5	1	1	na	na

		reads	miRBase family seed
seed	-------------ACGGGUU----------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	------------AACGGGTTTATTAATGCTGGG---------------------------------------	21	1
rat	ggcaatacttgaAACGGGTTTATTAATGCTGGGtattttgcacaattttatagacttcttttttacatagcc
	************************************************************************
rat	(((.......((((..(((((((...(((..........))).......)))))))..)))).......)))	1.000 -10.64

rat

chromosome:5:151473062:151473133:1

intergenic

block1889594 [novel_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	0.204	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	34	-3	5arm_loop	1	nd	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------UGUUCCU---------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----------------------------------TTGTTCCTCACTTCTCTGCAG--------------------------------------------------	21	1
rat	ttaggtggccattctggggctcaaagggagagctTTGTTCCTCACTTCTCTGCAGacccagggaaggagctcagctacggagactctgaacccaggcagtctgga
	*********************************************************************************************************
rat	(((((..(((....((((..(((.((....((((..((((((....((((((......))))))))))))..)))).......)).))).)))))))..))))).	0.520 -35.40

rat

chromosome:5:154400872:154400976:1

intergenic

block1890472 [novel_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	0.018	no	no	0.64/0.64	22/22/1.00	0.0	0.0	1	0	1	0	28	-3	5arm_loop	1	nd	0.32	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------AUGGCUU---------------------------------------------------------------	1	miR-135a/135b
		len	cloning frequencies
			T1S1
	----------------------------CATGGCTTCCCGAAGCGCAGGA-------------------------------------------------	22	1
rat	cgccccgcggcccggcagggaagggagcCATGGCTTCCCGAAGCGCAGGAatgaagtgcggtttcgggagccgcttttggcctgcgcttggccaggcga
	***************************************************************************************************
rat	((((....((((.(((.(((..((((((...(((.((((((((((((.........)))).)))))))))))))))))..)))..))).)))).)))).	0.670 -50.90

rat

chromosome:5:155221462:155221560:1

intergenic ## {SimpF: -1 Eponine,oe = 0.94 1 CpG}

block1917105 [novel_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	0.017	no	no	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	30	-3	5arm_loop	1	nd	0.45	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------GCCAAAG----------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	------------------------------AGCCAAAGGAAAGACTCAAT----------------------------------------------	20	1
rat	agctcggtgaacttactggtcacctaactgAGCCAAAGGAAAGACTCAATacgatctttccggatctgctagggctataaagcttttccgagacta
	************************************************************************************************
rat	(((((((.((((((..((((..((((...((.((...(((((((.((.....))))))))))).))...))))))))..))).))).))))).)).	0.930 -27.50

rat

chromosome:6:20990495:20990590:-1

intergenic

block1920419 [novel_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	0.787	no	no	0.68/0.70	20/22/1.00	1.0	2.0	2	0	2	0	27	-7	5arm_loop	1	nd	0.35	4	2	2	na	na

		reads	miRBase family seed
seed	----------------------------UCGCCGU---------------------------------------------------------------------------------	1	novel
seed	------------------------------GCCGUGC-------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T3S1
	-----------------------------CGCCGTGCGCTGCTCCTGTTTC-----------------------------------------------------------------	22	1	-
	---------------------------ATCGCCGTGCGCTGCTCCTG---------------------------------------------------------------------	20	-	1
rat	ccagcccaggctttcctaaccctgcacATCGCCGTGCGCTGCTCCTGTTTCcttaccctgtcgagcagtgtcgctgccgctgcggagtgggcgttcagttttcgggtcatcatggc
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000042760 ENSRNOG00000030768 AC157610.2
	....................................................................................................................>>>>>>>>>>	ENSRNOT00000014321 ENSRNOG00000010667 D5Wsu178e
rat	((((((((((((..(((.((.(((((....((.(((((((((((..................)))))))).))).))...))))).))))).....)))))..)))).....))).	0.740 -34.27

rat

chromosome:6:26096721:26096836:-1

block1923222 [novel_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	0.039	no	no	0.30/0.30	20/20/1.00	0.0	0.0	1	0	1	0	40	-4	5arm_loop	1	nd	0.35	5	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------ACAGAUU------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S2
	----------------------------------------TACAGATTTTATTTTCGGAG------------------------------------------------------------	20	1
rat	cgggaggggagggctggggaggatggggatgttacataaaTACAGATTTTATTTTCGGAGgcagaatggtattgtttagtggtgagtggtgtgaccagggcccatgagcaactcttccca
	************************************************************************************************************************
rat	.((((((((...(((.(((....(((..((..(((.....(((((((..(((((((.......))).))))..)))).)))....)))..))..)))...)))...)))..)))))))).	0.770 -36.50

rat

chromosome:6:32053065:32053184:-1

intergenic

novel_lenNOK_shortStem_randfoldOK (2599 loci)

block275 [novel_lenNOK_shortStem_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	0.17/0.17	18/18/0.00	0.0	0.0	1	0	1	0	3	23	5arm	1	nd	0.17	2	1	1	na	na

		reads	miRBase family seed
seed	----AUUUUCC------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	---AATTTTCCGTTTATTTAT--------------------------------------------------------------------------------	18	1
rat	agaAATTTTCCGTTTATTTATtgctcagcatgtgctcgcatgctcaaaagtatgccatgagccaatggacatttgaacaatagaatcaatgaaaaatattt
	*****************************************************************************************************
rat	....(((((.((((..(((((((.((((.(((((((((((((((....)))))))...))))......)))))))).)))))))...)))).)))))....	0.900 -24.00

rat

chromosome:10:425841:425941:-1

intergenic

block1042 [novel_lenNOK_shortStem_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	0.003	no	no	0.67/0.67	18/18/0.00	0.0	0.0	1	0	1	0	4	20	3arm	1	nd	0.28	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------GGGGUCU--------------	1	novel
		len	cloning frequencies
			T1S1
	--------------------------------------------------------------------------TGGGGTCTCACCTCCAGG----	18	1
rat	gagtcaatcactggagtcaagagccacccttacagtcatctatgtcctccttctgggcatggaaagggtagggaTGGGGTCTCACCTCCAGGgctt
	************************************************************************************************
rat	(((((.....((((((...(((.((..((((((.....(((((((((.......)))))))))....))))))...)).)))...)))))))))))	0.970 -38.90