miR-Intess: classification

other hairpins

novel_shortStem_5varHIGH_nonpairedHIGH_bulgeHIGH (16 loci)

block871180 [novel_shortStem_5varHIGH_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	0.089	no	no	0.42/0.48	19/24/0.80	5.6	5.4	5	0	2	0	0	27	5arm	2	nd	0.37	4	5	2	na	na

		reads	miRBase family seed
seed	-----------ACCACUG--------------------------------------------------------------------------------------------------	2	novel
seed	-UUGCUCU------------------------------------------------------------------------------------------------------------	1	novel
seed	--------UCUACCA-----------------------------------------------------------------------------------------------------	1	novel
seed	--UGCUCUU-----------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	----------TACCACTGACAGCATACTT---------------------------------------------------------------------------------------	19	-	1
	----------TACCACTGACAGCATACTTTC-------------------------------------------------------------------------------------	21	-	1
	-TTGCTCTTCTACCACTGACAGCA--------------------------------------------------------------------------------------------	23	-	1
	-------TTCTACCACTGACAGCATACTTTC-------------------------------------------------------------------------------------	24	1	-
	TTTGCTCTTCTACCACTGACAG----------------------------------------------------------------------------------------------	22	-	1
rat	TTTGCTCTTCTACCACTGACAGCATACTTTCgatagttctgttccttggataggttttccacatagagtctaaaggaatagagcagagtaacaaggctatgcagagaaattcaaat
	********************************************************************************************************************
rat	((((...((((....(((..(((.((((((.....((((((((((((...(((..(((......)))..))))))))))))))))))))).....)))...)))))))...)))).	0.770 -27.20

rat

chromosome:1:102925602:102925717:-1

intergenic

block1093670 [novel_shortStem_5varHIGH_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	0.615	no	no	0.50/0.58	20/24/1.00	3.2	4.5	6	0	2	0	0	6	5arm	1	nd	0.38	4	6	2	na	na

		reads	miRBase family seed
seed	------------GCAGAGU-------------------------------------------------------------	3	novel
seed	--------GUUUGCA-----------------------------------------------------------------	2	novel
seed	-AGGGGCU------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	-----------TGCAGAGTGGTGTGAGCTGGAGTC---------------------------------------------	24	2	1
	-------TGTTTGCAGAGTGGTGTGAG-----------------------------------------------------	20	-	2
	TAGGGGCTGTTTGCAGAGTGGTGT--------------------------------------------------------	24	-	1
rat	TAGGGGCTGTTTGCAGAGTGGTGTGAGCTGGAGTCcctgctggctggctttttcctccttttgccctcaagagtttttgg
	********************************************************************************
rat	(((..(((.((....(((.((((.(((..((((.....(((....)))...))))..))).))))))))).)))..))).	0.600 -20.40

rat

chromosome:20:5544429:5544508:1

intergenic

block1600634 [novel_shortStem_5varHIGH_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	0.702	no	no	0.57/0.59	19/22/0.80	1.2	1.0	5	0	1	0	4	2	5arm	1	nd	0.47	4	5	1	na	na

		reads	miRBase family seed
seed	-----GGAAGGC------------------------------------------------------------	4	novel
seed	-----------CAGUGAG------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----TGGAAGGCAGTGAGTGGCACA-----------------------------------------------	21	3
	----------GCAGTGAGTGGCACACATC-------------------------------------------	19	1
	----TGGAAGGCAGTGAGTGGCACAC----------------------------------------------	22	1
rat	ccttTGGAAGGCAGTGAGTGGCACACATCtggggaaatgtgtatagaaagagtgaaattagcagaagaaagg
	************************************************************************
rat	(((((.....((....(((..(((...((((............))))....)))..))).)).....)))))	0.450 -8.50

rat

chromosome:4:164245660:164245731:-1

intergenic

novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH (16 loci)

block197120 [novel_shortStem_loopOverlap_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	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	2	-3	3arm_loop	1	nd	0.40	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------CUGGAGC--------------	1	novel
		len	cloning frequencies
			T3S1
	--------------------CCTGGAGCCTAACACTTGCT--	20	1
rat	ctagctatgtgctcctaggaCCTGGAGCCTAACACTTGCTag
	******************************************
rat	(((((..((((((((........)))))...)))...)))))	1.000 -14.80

rat

chromosome:12:33274898:33274939:-1

intergenic

block486505 [novel_shortStem_loopOverlap_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	0.45/0.47	19/20/0.71	0.0	0.3	7	0	5	0	0	-1	3arm	4	nd	0.32	3	7	5	na	na

		reads	miRBase family seed
seed	-------------------------CCCUGUG------------	7	novel
		len	cloning frequencies
			T1S2	T3S1	T3S2	T5S1	T5S2
	------------------------TCCCTGTGAATGGACATGAA	20	1	2	2	-	-
	------------------------TCCCTGTGAATGGACATGA-	19	-	-	-	1	1
rat	ttcatctgccaaggacagggttgaTCCCTGTGAATGGACATGAA
	********************************************
rat	.((((...(((...((((((.....))))))...)))..)))).	1.000 -15.10

rat

chromosome:15:35016385:35016428:1

intergenic

block676071 [novel_shortStem_loopOverlap_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	0.55/0.55	22/22/1.00	0.0	0.0	1	0	1	0	2	-3	3arm_loop	1	nd	0.32	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------AACUGAA----------------	1	novel
		len	cloning frequencies
			T3S2
	----------------------------------------------CAACTGAAATGTCAGGAGGGCC--	22	1
rat	gggctccctagtcaagtcagaaaaaccattaacagtcatttaaaacCAACTGAAATGTCAGGAGGGCCca
	**********************************************************************
rat	(((((((((...((..((((.............................))))..))..))).)))))).	0.870 -18.55

rat

chromosome:17:80509294:80509363:1

intergenic

block792877 [novel_shortStem_loopOverlap_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	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	0	-2	3arm_loop	7	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------ACUUUAC------------	1	novel
		len	cloning frequencies
			T3S2
	------------------------------------CACTTTACTATGACCTTGGA	20	1
rat	tcagggtctttgtatagatctcaactttttttttctCACTTTACTATGACCTTGGA
	********************************************************
rat	((((((((...(((.((.....................)).)))...)))))))).	1.000 -11.80

rat

chromosome:19:59060997:59061052:-1

intergenic

block944486 [novel_shortStem_loopOverlap_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	0.14/0.14	21/21/1.00	0.0	0.0	1	0	1	0	4	-3	3arm_loop	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------AAAGCCA-----------------	1	miR-742
		len	cloning frequencies
			T1S1
	------------------------TAAAGCCAAATTAAAAAAAAA----	21	1
rat	tgtgtttaagttttaaaggggttaTAAAGCCAAATTAAAAAAAAAcata
	*************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000044049 ENSRNOG00000040148
	-----------------------------------------------------------	ENSRNOT00000015927 ENSRNOG00000011460 RGD1309903_predicted
rat	(((((((...((((((...((((....))))...))))))..)))))))	1.000 -10.00

rat

chromosome:1:13760335:13760383:1

Opposite_strand|Intronic_coding|ENSRNOT00000015927|ENSRNOG00000011460 ## Same_strand|Intronic_coding|ENSRNOT00000044049|ENSRNOG00000040148 ## ENSRNOG00000040148|protein_coding|| ## ENSRNOG00000011460|protein_coding|RGD1309903_predicted| ## {Repeats: dust 13760383 13760391 0 class=dust}

block999835 [novel_shortStem_loopOverlap_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	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	3	-4	3arm_loop	1	13	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------------CCCGGUC----------------	1	novel
		len	cloning frequencies
			T5S2
	------------------------TCCCGGTCCTTTCTCGTCAGT---	21	1
rat	gctcctgactgagtaagtgtccatTCCCGGTCCTTTCTCGTCAGTagc
	************************************************
	>>>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000055811 ENSRNOG00000037061 AC113019.13
rat	(((.(((((.(((.(((...((......))..))).)))))))).)))	1.000 -16.00

rat

chromosome:1:131193531:131193578:1

block1014551 [novel_shortStem_loopOverlap_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	0.008	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	0	-3	3arm_loop	1	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	----------------------------AAAAGUG------------	1	novel
		len	cloning frequencies
			T4S2
	---------------------------TAAAAGTGCTTAGGGGCCCC	20	1
rat	ggggcctagtatagaacttgcaggtatTAAAAGTGCTTAGGGGCCCC
	***********************************************
	---------------------------------------------------------	ENSRNOT00000022984 ENSRNOG00000017021 Galntl4_predicted
rat	(((((((.....((.((((...........)))).))...)))))))	0.510 -16.80