miR-Intess: classification

other hairpins

miRNAunknown_lenNOK_Multihit_bulgeHIGH (2 loci)

block1348162 (miRNA) [miRNAunknown_lenNOK_Multihit_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
Ensembl miRNA	0.063	no	no	0.32/0.32	19/19/0.00	0.7	0.7	3	0	2	0	13	3	3arm	12	nd	0.21	4	3	2	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------UGGUUAA--------------------------	2	novel
seed	----------------------------------------------------------GUUAAUG------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2
	-------------------------------------------------------CTGGTTAATGATAACAATG---------------	19	-	2
	---------------------------------------------------------GGTTAATGATAACAATGCA-------------	19	1	-
rat	gaacggtttcagaagtgtttgtctcaattggccttttaagtttaatagtaaaagaCTGGTTAATGATAACAATGCAtcgtaaaaccgtc
	*****************************************************************************************
	.........................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000054562 ENSRNOG00000036451
rat	..(((((((..((.(((.((((....(((((((.....(((((.........))))))))))))....))))))).))...))))))).	0.990 -18.70

rat

chromosome:3:2406845:2406933:-1

Same_strand|Exonic_non-coding|ENSRNOT00000054562|ENSRNOG00000036451 ## ENSRNOG00000036451|miRNA||

miRNAunknown_lenNOK_Multihit_randfoldOK_nonpairedHIGH (2 loci)

block796109 (miRNA) [miRNAunknown_lenNOK_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
Ensembl miRNA	0.001	no	no	0.61/0.74	18/19/0.00	0.0 0.0	0.0 0.0	1 2	0 0	1 1	0 0	28 32	10 5	5arm 5arm	1 71	nd nd	0.39 0.47	2 2	3	1	na	na

		reads	miRBase family seed
seed	-----------------------------UGAUCGG---------------------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------CGGUCGG---------------------------------------------------------	1	novel
seed	---------------------------------CGGUCGG-----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----------------------------TTGATCGGTCGGTCGGTC-----------------------------------------------------------------------	18	1
	--------------------------------TCGGTCGGTCGGTCGGTCG------------------------------------------------------------------	19	1
	----------------------------------------------------TCGGTCGGTCGGTCGGTCG----------------------------------------------	19	1
rat	ttggttggttggttggttggttggttggTTGATCGGTCGGTCGGTCGGTCGgTCGGTCGGTCGGTCGGTCGgtcggtcggtcggttggttggttggtcagttggttggtcagttggt
	*********************************************************************************************************************
	................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>....................................	ENSRNOT00000054530 ENSRNOG00000036418
rat	((..((((..((..((((((..((..((..(((((..((..((..((..((..(((....)))..))..))..))..))..)))))..))..))..))))))..))..))))..)).	1.000 -52.30

rat

chromosome:19:9209648:9209764:1

Same_strand|Exonic_non-coding|ENSRNOT00000054530|ENSRNOG00000036418 ## ENSRNOG00000036418|miRNA|| ## {Repeats: dust 9209792 9209847 0 class=dust,(TTGG)n 1 355 1 class=Simple_repeat,(TTGG)n 104 159 1 class=Simple_repeat,trf 221 276 0 class=trf}

block2937843 (miRNA) [miRNAunknown_lenNOK_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
Ensembl miRNA	0.001	no	no	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	19	0	3arm	271	nd	0.42	2	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------GUGUGUG------------------------------	1	novel
		len	cloning frequencies
			T1S2
	------------------------------------------TGTGTGTGTGTGTGCGTGC-------------------	19	1
rat	tgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgTGTGTGTGTGTGTGCGTGCatgctcacgcacacatgcc
	********************************************************************************
	..>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000062968 ENSRNOG00000041215
rat	.(((((((((((((.(((((..((((..((..((..((....))..))..))..))))..))))).))))))))))))).	1.000 -36.60

rat

chromosome:X:13226906:13226985:1

Same_strand|Exonic_non-coding|ENSRNOT00000062968|ENSRNOG00000041215 ## ENSRNOG00000041215|miRNA|| ## {Repeats: (TG)n 1 60 1 class=Simple_repeat,trf 1 19 0 class=trf,(TG)n 42 60 1 class=Simple_repeat,dust 13226906 13226920 0 class=dust}

miRNAunknown_lenNOK_Multihit_shortStem (2 loci)

block24717 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem]

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
Ensembl miRNA	0.136	no	no	0.47/0.47	19/19/0.00	0.0	0.0	1	0	1	0	3	8	5arm	11	nd	0.16	1	1	1	na	na

		reads	miRBase family seed
seed	----GCCAUCA------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	---TGCCATCAGAAGACTGAAG-------------------------------------------------	19	1
rat	gtcTGCCATCAGAAGACTGAAGgaaccagtagaccagcccttcctacggtctgagacctgcctggcctgca
	***********************************************************************
	>>>>>>>>>>>>.....................................................................	ENSRNOT00000054439 ENSRNOG00000036317
rat	((..((((.(((.((((((.(((((...((......))..))))).)))))).....)))..))))..)).	0.990 -21.20

rat

chromosome:10:55913745:55913815:-1

Same_strand|Boundary_non-coding|ENSRNOT00000054439|ENSRNOG00000036317 ## ENSRNOG00000036317|miRNA||

block360185 (miRNA) [miRNAunknown_lenNOK_Multihit_shortStem]

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
Ensembl miRNA	0.336	no	no	0.32/0.32	19/19/0.00	0.7	0.7	3	0	2	0	4	30	5arm	12	nd	0.21	2	3	2	na	na

		reads	miRBase family seed
seed	-----UGGUUAA----------------------------------------------------------------------------------------------------------	2	novel
seed	-------GUUAAUG--------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2
	----CTGGTTAATGATAACAATG-----------------------------------------------------------------------------------------------	19	-	2
	------GGTTAATGATAACAATGCA---------------------------------------------------------------------------------------------	19	1	-
rat	aagaCTGGTTAATGATAACAATGCAtcttaaagccttcagaaggaaagaatgttttgtggaccattttgtgtgtgtgggggggcagttttaagttattagttttcaaaatcagtactt
	**********************************************************************************************************************
	......>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.........	ENSRNOT00000054493 ENSRNOG00000036375
rat	((((((((((..(((.(((((((...((((((((((((........((((((.((....)).))))))..........))))))...)))))).)))).))).))).))))))).)))	0.730 -23.87

rat

chromosome:14:67222702:67222819:-1

Same_strand|Exonic_non-coding|ENSRNOT00000054493|ENSRNOG00000036375 ## ENSRNOG00000036375|miRNA||

miRNAunknown_lenNOK_Multihit_shortStem_randfoldOK (2 loci)

block576331 (miRNA) [miRNAunknown_lenNOK_Multihit_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
Ensembl miRNA	0.001	no	no	0.47/0.47	19/19/0.00	0.0	0.0	1	0	1	0	1	15	5arm	255	nd	0.16	2	1	1	na	na

		reads	miRBase family seed
seed	--UUCCGUG---------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	-TTTCCGTGTGTGTGTGTGT----------------------------------------------------------------------------	19	1
rat	tTTTCCGTGTGTGTGTGTGTgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtttgtttgtacgcacacacatgcatgtgcacacattggaaaac
	************************************************************************************************
	............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000063042 ENSRNOG00000041289
rat	(((((((.(((((((..((((((((((((((((((..........................))))))))))))))))))..)))))))))))))).	0.960 -43.87

rat

chromosome:16:48755840:48755935:1

Opposite_strand|Boundary_non-coding|ENSRNOT00000063042|ENSRNOG00000041289 ## ENSRNOG00000041289|miRNA|| ## {Repeats: trf 43 56 0 class=trf,dust 48755788 48755791 0 class=dust,(TG)n 2 57 1 class=Simple_repeat,(TG)n 2 15 1 class=Simple_repeat,dust 48755880 48755893 0 class=dust}

block1851673 (miRNA) [miRNAunknown_lenNOK_Multihit_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
Ensembl miRNA	0.001	no	no	0.53/0.53	19/19/0.00	0.0	0.0	1	0	1	0	4	13	5arm	22	nd	0.11	2	1	1	na	na

		reads	miRBase family seed
seed	-----CAGUGUG--------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	----ACAGTGTGTGTGTGTGTGC---------------------------------------------------------	19	1
rat	tgccACAGTGTGTGTGTGTGTGCgtgtgtgtgtgtgtgtgtgtgtgtgcgtgcatgtatgcacttgcacacacncaggca
	********************************************************************************
	............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000063104 ENSRNOG00000041351
rat	.(((...(((((((((((((((((((..((((..((......))..))))..)))))))))))..))))))))...))).	0.990 -38.70

rat

chromosome:5:86515018:86515097:1

Opposite_strand|Boundary_non-coding|ENSRNOT00000063104|ENSRNOG00000041351 ## ENSRNOG00000041351|miRNA|| ## {Repeats: dust 86515050 86515065 0 class=dust,(TG)n 1 53 1 class=Simple_repeat,(TG)n 1 16 1 class=Simple_repeat,trf 30 45 0 class=trf}

miRNAunknown_lenNOK_cloningOK_Multihit_randfoldOK (2 loci)

block136480 (miRNA) [miRNAunknown_lenNOK_cloningOK_Multihit_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
Ensembl miRNA	0.003	no	no	0.37/0.48	19/23/0.29	0.3	1.0	18	0	9	0	13	8	3arm	29	nd	0.26	3	28	9	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------UAUGUGU------------------------------	24	novel
seed	---------------------------------------------------------UGUGUGU----------------------------	4	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S2
	------------------------------------------------------ATATGTGTGTGTGTATGTC-------------------	19	1	1	5	1	4	6	1	1	-
	------------------------------------------------------ATATGTGTGTGTGTATGTCC------------------	20	-	-	-	-	1	1	-	1	1
	--------------------------------------------------------ATGTGTGTGTGTATGTCCTGGTC-------------	23	-	-	3	-	-	-	-	-	-
	--------------------------------------------------------ATGTGTGTGTGTATGTCCTG----------------	20	-	-	1	-	-	-	-	-	-
rat	atatggaattttcctctgtgtgtatatgcatgtatttccattttatatgaggatATATGTGTGTGTGTATGTCCTGGTCatatatttgtata
	********************************************************************************************
	...................................................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000062957 ENSRNOG00000041204
rat	(((..((.....((..((((..((((((((((((((..(((.....)))..))))))))))))))..))))....)).......))..))).	0.790 -22.90

rat

chromosome:11:79429989:79430080:-1

Same_strand|Exonic_non-coding|ENSRNOT00000062957|ENSRNOG00000041204 ## ENSRNOG00000041204|miRNA||

block630396 (miRNA) [miRNAunknown_lenNOK_cloningOK_Multihit_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
Ensembl miRNA	0.001	no	no	0.38/0.44	18/21/0.13	0.0	0.0	23	0	6	0	39	3	5arm	29	nd	0.16	2	31	6	na	na

		reads	miRBase family seed
seed	----------------------------------------GUGUAUG---------------------------------------------------------------------	29	novel
seed	-----------------------------------------UGUAUGU--------------------------------------------------------------------	2	miR-297
		len	cloning frequencies
			T2S1	T2S2	T3S1	T3S2	T4S2	T5S2
	---------------------------------------TGTGTATGTCCATGTGTGT----------------------------------------------------------	19	7	10	3	-	3	-
	---------------------------------------TGTGTATGTCCATGTGTGTA---------------------------------------------------------	20	2	1	-	-	-	-
	---------------------------------------TGTGTATGTCCATGTGTG-----------------------------------------------------------	18	1	-	-	1	-	-
	----------------------------------------GTGTATGTCCATGTGTGTA---------------------------------------------------------	19	-	-	1	-	-	1
	---------------------------------------TGTGTATGTCCATGTGTGTAT--------------------------------------------------------	21	-	-	1	-	-	-
rat	tgtgatgctcctatgtatgtgcatgtgtatatatatgttTGTGTATGTCCATGTGTGTatacatatatacatacatacacacacaaacaagcacatgcacacatgaatggcaaaca
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042430 ENSRNOG00000029235 Sfmbt2
	..........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>..................	ENSRNOT00000062985 ENSRNOG00000041232
rat	.((..((((..(((((..((((((((((.......(((((((((.(((..(((((((((((....)))))))))))))).))))))))).)))))))))))))))...)))).)).	0.990 -45.30

rat

chromosome:17:79252035:79252150:-1

Same_strand|Boundary_non-coding|ENSRNOT00000051529|ENSRNOG00000029235 ## Same_strand|Intronic_coding|ENSRNOT00000042430|ENSRNOG00000029235 ## Same_strand|Exonic_non-coding|ENSRNOT00000062985|ENSRNOG00000041232 ## ENSRNOG00000041232|miRNA|| ## ENSRNOG00000029235|protein_coding|Sfmbt2|Scm-like with four mbt domains 2 Gene [Source:MGI (curated);Acc:Sfmbt2-001] ## {Repeats: dust 79252091 79252112 0 class=dust,(CA)n 2 48 -1 class=Simple_repeat,(TATG)n 25 26 -1 class=Simple_repeat,(TATG)n 2 26 -1 class=Simple_repeat,(CA)n 2 21 -1 class=Simple_repeat}

miRNAunknown_lenNOK_cloningOK_multiarm_DicerNOK_randfoldOK (2 loci)

sblock10839 (miRNA) [miRNAunknown_lenNOK_cloningOK_multiarm_DicerNOK_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
Ensembl miRNA	0.001	no	no	0.32/0.50	18/22/0.58	0.1 0.0	1.5 0.0	11 1	0 0	2 1	0 0	32 33	0 2	5arm 3arm	1 1	nd nd	0.21 0.28	2 3	12	2	2	-2

		reads	miRBase family seed
seed	---------------------------------AUACCUC------------------------------------------------------------------------------	10	novel
seed	----------------------------------UACCUCA-----------------------------------------------------------------------------	1	novel
seed	--------------------------------------------------------------------CUGAAAA-------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2
	--------------------------------TATACCTCAGTTTTATCAGGTG----------------------------------------------------------------	22	2	1
	--------------------------------TATACCTCAGTTTTATCAG-------------------------------------------------------------------	19	-	3
	--------------------------------TATACCTCAGTTTTATCAGGT-----------------------------------------------------------------	21	-	2
	--------------------------------TATACCTCAGTTTTATCAGG------------------------------------------------------------------	20	2	-
	-------------------------------------------------------------------CCTGAAAACACTGAGGCT---------------------------------	18	1	-
	---------------------------------ATACCTCAGTTTTATCAGG------------------------------------------------------------------	19	-	1
rat	caggctggggagcattccaagttctgtggtacTATACCTCAGTTTTATCAGGTGttcattcaaatcaCCTGAAAACACTGAGGCTgcgtcccactgaacatcagcttcctggactctg
	**********************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000014703 ENSRNOG00000010865 Cohh1_predicted
	--------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000033021 ENSRNOG00000010865 Cohh1_predicted
	...........................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.......................	ENSRNOT00000063101 ENSRNOG00000041348
rat	(((.(((((((((.......((((.((((.((....(((((((.((.(((((((...........))))))).)).)))))))....)).)))).))))....)))))))))...)))	0.990 -46.30

rat

chromosome:7:71189219:71189336:-1

Opposite_strand|Intronic_non-coding|ENSRNOT00000014703|ENSRNOG00000010865 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000014768|ENSRNOG00000010865 ## Opposite_strand|Intronic_coding|ENSRNOT00000033021|ENSRNOG00000010865 ## Same_strand|Exonic_non-coding|ENSRNOT00000063101|ENSRNOG00000041348 ## ENSRNOG00000010865|protein_coding|Cohh1_predicted| ## ENSRNOG00000041348|miRNA||

Page 31133

Jump 10 pages forward

Page 31204

miR-Intess™