miR-Intess: classification

other hairpins

novel_lenNOK_gcHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH (16 loci)

block1641484 [novel_lenNOK_gcHIGH_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	0.056	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	26	-3	5arm_loop	2	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------GCGAGCG------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	--------------------------CGCGAGCGCCCCGCCCCC--------------------------------------------------------	18	1
rat	cgcgctgctgccggcgccaaatataaCGCGAGCGCCCCGCCCCCtcaggcccggcgctcacccaccagctccgcgtgccctgaggcccggctcgggcgcg
	****************************************************************************************************
	--------------------------------------------------------------------------------------------------------------	ENSRNOT00000051405 ENSRNOG00000032252 LOC681850
	--------------------------------------------------------------------------------------------------------------	ENSRNOT00000047545 ENSRNOG00000032252 LOC681850
rat	((((((...(((((.(((.......(((((((((((..(((......)))..))))))).............)))).......))))))))...))))))	0.540 -48.25

rat

chromosome:4:57741899:57741998:1

block1774479 [novel_lenNOK_gcHIGH_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	0.872	no	no	1.00/1.00	18/18/0.00	0.0	0.0	1	0	1	0	32	-3	3arm_loop	1	nd	0.50	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------CGGGCGC------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	--------------------------------------GCGGGCGCGGGGGGGGGG--------------------------------	18	1
rat	gtgaagaataggcacggtcactcaccatcaacggccatGCGGGCGCGGGGGGGGGGgggggagggacagcatgaagccaggatacaca
	****************************************************************************************
	--------------------------------------------------------------------------------------------------	ENSRNOT00000016557 ENSRNOG00000011644 NP_001102443.1
rat	(((.......(((...(((.(((.((.((..(((((.....))).))..))....))...))).)))........)))......))).	0.660 -22.62

rat

chromosome:5:129102191:129102278:-1

Opposite_strand|Intronic_coding|ENSRNOT00000016557|ENSRNOG00000011644 ## ENSRNOG00000011644|protein_coding|NP_001102443.1|solute carrier family 1 (glutamate transporter), member 7 [Source:RefSeq_peptide;Acc:NP_001102443] ## {Repeats: GC_rich 6 23 -1 class=Low_complexity,dust 129102223 129102232 0 class=dust,GC_rich 1 23 -1 class=Low_complexity}

block2638025 [novel_lenNOK_gcHIGH_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	0.132	no	no	0.94/0.94	18/18/0.00	0.0	0.0	2	0	2	0	6	-4	3arm_loop	1	nd	0.50	4	2	2	na	na

		reads	miRBase family seed
seed	---------------------------------------------CCCGGGG----------------	2	novel
		len	cloning frequencies
			T1S2	T2S1
	--------------------------------------------TCCCGGGGGGGGGGGCCC------	18	1	1
rat	gtgtatttcctttcttcctccttttctctttctgcttttccactTCCCGGGGGGGGGGGCCCtctcac
	********************************************************************
rat	(((.....(((..((((((.............................))))))..)))......)))	1.000 -12.75

rat

chromosome:9:97833228:97833295:1

intergenic ## {Repeats: dust 97833276 97833286 0 class=dust}

block1426511 [novel_lenNOK_gcHIGH_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	0.255	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	6	-1	3arm	3	nd	0.44	4	1	1	na	na

		reads	miRBase family seed
seed	----------------------------CCGGGGA----------------	1	novel
		len	cloning frequencies
			T5S2
	---------------------------GCCGGGGAGGGGCCGGGG------	18	1
rat	gcgccatggctctgatggaggggagggGCCGGGGAGGGGCCGGGGaggggc
	***************************************************
rat	((.((.(((((((..(((..........)))....)))))))....)).))	0.620 -16.60

rat

chromosome:3:161377591:161377641:-1

intergenic ## {Repeats: dust 161377575 161377593 0 class=dust,C-rich 2 73 -1 class=Low_complexity,C-rich 24 42 -1 class=Low_complexity,trf 12 30 0 class=trf}

block1443140 [novel_lenNOK_gcHIGH_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	0.059	no	no	1.00/1.00	19/19/0.00	0.0	0.0	1	0	1	0	14	-3	5arm_loop	4	nd	0.47	4	1	1	na	na

		reads	miRBase family seed
seed	---------------GCCCCCC--------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	--------------CGCCCCCCCCCGCCCCCCG---------------------------------	19	1
rat	ctttccgcctgtgaCGCCCCCCCCCGCCCCCCGccggggcaggggttgtcttcctggccaggaagg
	******************************************************************
rat	(((((((((...((((....((((.(((((.....))))).)))).)))).....)))..))))))	1.000 -31.40

rat

chromosome:3:18495290:18495355:1

intergenic ## {Repeats: GC_rich 1 26 1 class=Low_complexity,GC_rich 1 19 1 class=Low_complexity,dust 18495306 18495321 0 class=dust}

novel_lenNOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH (16 loci)

block44314 [novel_lenNOK_shortStem_5varHIGH_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	0.046	no	no	0.67/0.78	18/24/0.67	4.0	7.0	3	0	3	0	3	-23	3arm	1	nd	0.38	4	3	3	na	na

		reads	miRBase family seed
seed	-----------------------CGGAGCU--------------------------	1	novel
seed	---------------------------------GCCUGGG----------------	1	novel
seed	-------------------------GAGCUGC------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S1	T3S2
	----------------------GCGGAGCTGCAGCCTGGG----------------	18	-	-	1
	------------------------GGAGCTGCAGCCTGGGAGCAGGAC--------	24	-	1	-
	--------------------------------AGCCTGGGAGCAGGACGTGTC---	21	1	-	-
rat	gcgggggcgggctcagcagagtGCGGAGCTGCAGCCTGGGAGCAGGACGTGTCcgc
	********************************************************
rat	(((((.(((.((((..(((..((((....))))..))).))))....))).)))))	0.420 -27.40

rat

chromosome:10:93104031:93104086:-1

intergenic

block397760 [novel_lenNOK_shortStem_5varHIGH_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	0.021	no	no	0.32/0.38	19/24/0.33	3.7	0.3	3	0	2	0	0	-3	5arm_loop	2	7	0.42	4	3	2	na	na

		reads	miRBase family seed
seed	------UUAACUG-------------------------------------	1	novel
seed	-------UAACUGU------------------------------------	1	novel
seed	-UACUCUU------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T5S1
	-----CTTAACTGTCCTTTCCTTT--------------------------	19	1	-
	GTACTCTTAACTGTCCTTTCCTTT--------------------------	24	-	1
	------TTAACTGTCCTTTCCTTTA-------------------------	19	1	-
rat	GTACTCTTAACTGTCCTTTCCTTTAttcctaggtttgaagagttgagtac
	**************************************************
	+++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000003552 ENSRNOG00000002553 RGD1311122
rat	((((((..((((.((....(((........)))...))..))))))))))	1.000 -10.80

rat

chromosome:14:45503773:45503822:1

block491187 [novel_lenNOK_shortStem_5varHIGH_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	0.627	no	no	0.63/0.72	18/20/0.12	2.5	2.1	8	0	4	0	2	-1	5arm_loop	1	nd	0.35	4	8	4	na	na

		reads	miRBase family seed
seed	---GGAGCGC--------------------------------------------	3	novel
seed	---------CACUGGA--------------------------------------	2	novel
seed	-----AGCGCAC------------------------------------------	2	novel
seed	-------CGCACUG----------------------------------------	1	miR-106b*
		len	cloning frequencies
			T1S2	T2S1	T3S2	T5S1
	--AGGAGCGCACTGGAGCCAA---------------------------------	19	-	3	-	-
	--------GCACTGGAGCCAAGCCGC----------------------------	18	1	-	1	-
	------GCGCACTGGAGCCAAGCC------------------------------	18	-	-	-	1
	----GAGCGCACTGGAGCCAAG--------------------------------	18	-	1	-	-
	----GAGCGCACTGGAGCCAAGCC------------------------------	20	-	1	-	-
rat	ggAGGAGCGCACTGGAGCCAAGCCGCagacgggtgagacagctgcaccttttct
	******************************************************
rat	(((((((.((((((....((..(((....))).))...))).)))..)))))))	0.980 -14.50

rat

chromosome:15:45392627:45392680:1

intergenic

block632374 [novel_lenNOK_shortStem_5varHIGH_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	0.060	no	no	0.61/0.61	18/18/0.00	1.3	1.3	3	0	2	0	4	-2	5arm_loop	1	nd	0.33	4	3	2	na	na

		reads	miRBase family seed
seed	------UGACCUU--------------------------------------------------	1	novel
seed	-----CUGACCU---------------------------------------------------	1	novel
seed	--------ACCUUCA------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T2S1
	-----CTGACCTTCATGCCCCAC----------------------------------------	18	-	1
	----GCTGACCTTCATGCCCCA-----------------------------------------	18	1	-
	-------GACCTTCATGCCCCACGT--------------------------------------	18	-	1
rat	catgGCTGACCTTCATGCCCCACGTgaagaagaagtagggagacgaggcaagaacagcccatg
	***************************************************************
	-------------------------------------------------------------------------	ENSRNOT00000024099 ENSRNOG00000017882 Camk1d
rat	((((((((.((((....(((.((...........)).)))....))))......))))).)))	0.610 -15.80

rat

chromosome:17:83697858:83697920:-1

block678561 [novel_lenNOK_shortStem_5varHIGH_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	0.066	no	no	0.58/0.62	19/24/0.50	2.5	0.0	2	0	2	0	2	-1	3arm	1	nd	0.37	5	2	2	na	na

		reads	miRBase family seed
seed	-------------------------------UCGUAGG-------------	1	novel
seed	--------------------------CCACAUC------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2
	-------------------------CCCACATCGTAGGATCCGCTACCC--	24	-	1
	------------------------------ATCGTAGGATCCGCTACCC--	19	1	-
rat	tagggcgggtcttcacttggtccctCCCACATCGTAGGATCCGCTACCCtg
	***************************************************
rat	...((((((((((.((.(((......)))....))))))))))))......	0.940 -16.50

rat

chromosome:17:85934387:85934437:1

intergenic

Page 30874

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Page 31204

miR-Intess™

block1641484 [novel_lenNOK_gcHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block1774479 [novel_lenNOK_gcHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block2638025 [novel_lenNOK_gcHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block1426511 [novel_lenNOK_gcHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block1443140 [novel_lenNOK_gcHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block44314 [novel_lenNOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block397760 [novel_lenNOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block491187 [novel_lenNOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block632374 [novel_lenNOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]

block678561 [novel_lenNOK_shortStem_5varHIGH_loopOverlap_nonpairedHIGH_bulgeHIGH]