miR-Intess: classification

other hairpins

novel_lenNOK_Multihit_5varHIGH_nonpairedHIGH_bulgeHIGH (65 loci)

block2089626 [novel_lenNOK_Multihit_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	0.184	no	no	0.42/0.48	19/23/0.33	1.5	2.8	6	0	2	0	6	13	5arm	12	nd	0.42	4	6	2	na	na

		reads	miRBase family seed
seed	----------GCACACU-----------------------------------------------------------------------------------	3	novel
seed	-------------CACUCAG--------------------------------------------------------------------------------	2	novel
seed	-------GGAGCAC--------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2	T5S1
	---------AGCACACTCAGTATCTACA------------------------------------------------------------------------	19	-	3
	------------ACACTCAGTATCTACATGGACCC-----------------------------------------------------------------	23	-	2
	------TGGAGCACACTCAGTATCT---------------------------------------------------------------------------	19	1	-
rat	ccatggTGGAGCACACTCAGTATCTACATGGACCCcctttgatgttagtagaccctagcagagggtaatggctgtagcatggtaatggctgtagcatggt
	****************************************************************************************************
rat	(((((.((.(((..((.((....(((((......(((((...((((((......))))))))))).......)))))..))))....))).)).))))).	0.490 -29.42

rat

chromosome:7:17764066:17764165:-1

intergenic

novel_lenNOK_gcHIGH_nonpairedHIGH (63 loci)

block80272 [novel_lenNOK_gcHIGH_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	0.308	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	39	1	5arm	1	nd	0.39	3	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------GGCGGCG------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	---------------------------------------CGGCGGCGGGCGGGGGAG--------------------------------------------------------	18	1
rat	cgggcgctgcgcggcacagccaatgatcgcgagccggcgCGGCGGCGGGCGGGGGAGcgagcgcagcctggagctgcggcgccagcgggttgagccgggcgatcctagcccgg
	*****************************************************************************************************************
rat	(((((..(((.((((.(((((...........((.(((((.(((((...((((...((....))..))))..))))).))))).)).))))).)))).)))......))))).	0.700 -60.30

rat

chromosome:10:59908634:59908746:1

intergenic ## {Repeats: GC_rich 7 23 1 class=Low_complexity,GC_rich 1 23 1 class=Low_complexity} ## {SimpF: 1 Eponine,oe = 0.86 1 CpG}

block105529 [novel_lenNOK_gcHIGH_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	0.186	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	12	0	3arm	1	nd	0.33	2	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------CGGAGCC----------------------	1	novel
		len	cloning frequencies
			T5S2
	------------------------------------------CCGGAGCCCCCCCGCCCC------------	18	1
rat	cctatctggggagcagggtgggaaaggaagactggatagataCCGGAGCCCCCCCGCCCCacacccactggc
	************************************************************************
rat	((....((((.....(((((((...((....((((.......))))..))..)))))))....))))..)).	1.000 -25.80

rat

chromosome:10:108492922:108492993:1

intergenic

block131148 [novel_lenNOK_gcHIGH_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	0.541	no	no	1.00/1.00	18/18/0.00	0.0	0.0	1	0	1	0	26	3	3arm	9	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------GGGCGGG------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	----------------------------------------------GGGGCGGGGCGGCGGCGG--------------------------	18	1
rat	cggaggcggccgcacgccgctgtgagccgaggcccgggcggcgcggGGGGCGGGGCGGCGGCGGgaggaggggatgcggagggcgctccg
	******************************************************************************************
rat	(((((((..((((((((((((((..(((....((((.......)))).)))...)))))))))...........)))))...)).)))))	0.640 -44.50

rat

chromosome:11:67438285:67438374:-1

intergenic ## {Repeats: dust 67438311 67438329 0 class=dust,C-rich 29 47 -1 class=Low_complexity,trf 10 28 0 class=trf,C-rich 7 136 -1 class=Low_complexity} ## {SimpF: 1 Eponine,oe = 0.87 -1 CpG}

block138799 [novel_lenNOK_gcHIGH_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	0.877	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	5	27	3arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------------------------GGGGCGG---------------	1	novel
		len	cloning frequencies
			T2S2
	-----------------------------------------------------------------------------------------------GGGGGCGGGCTGGGGGCC-----	18	1
rat	ccaaacctccctggccgcgcagtccgacgccgcagctgcccgggctgcagaccagattgatcggaggaggggcggggcaggggagccgtgcgggaGGGGGCGGGCTGGGGGCCgtggg
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000043701 ENSRNOG00000001715 Ece2
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000049511 ENSRNOG00000001715 Ece2
rat	(((....((((..(((.(((..(((....((((((((.(((...((((...((...............)).))))....))).)))..)))))..))).))))))..))))...))).	0.930 -52.96

rat

chromosome:11:82521116:82521233:-1

Same_strand|Boundary_non-coding|ENSRNOT00000002334|ENSRNOG00000001715 ## Same_strand|Intronic_coding|ENSRNOT00000043701|ENSRNOG00000001715 ## ENSRNOG00000001715|protein_coding|Ece2|endothelin-converting enzyme 2 [Source:RefSeq_peptide;Acc:NP_001002815] ## {Repeats: dust 82521121 82521139 0 class=dust}

block184919 [novel_lenNOK_gcHIGH_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	0.187	no	no	1.00/1.00	18/18/0.00	0.0	0.0	1	0	1	0	19	13	5arm	1	nd	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------CCCCGCC-------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-------------------GCCCCGCCCCGGCGCCCC---------------------------------------------------------------------------	18	1
rat	cgggcgccggcagctcctgGCCCCGCCCCGGCGCCCCcctcctcttccgcactgcaatcctggcagggggtggcccagtgccgggccaggtggagtcttggctgtggccctg
	****************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000001682 ENSRNOG00000001250 Lfng
rat	((((.(((.((((((((((((((.((...(((..((((((((......((...))......)).))))))..)))....)).)))))))).........)))))))))))))	0.950 -57.70

rat

chromosome:12:14502131:14502242:-1

Same_strand|Intronic_coding|ENSRNOT00000001682|ENSRNOG00000001250 ## ENSRNOG00000001250|protein_coding|Lfng|Beta-1,3-N-acetylglucosaminyltransferase lunatic fringe (EC 2.4.1.222) (O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase). [Source:UniProtKB/Swiss-Prot;Acc:Q924T4] ## {Repeats: GC_rich 3 21 -1 class=Low_complexity,GC_rich 1 21 -1 class=Low_complexity}

block270782 [novel_lenNOK_gcHIGH_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	0.431	no	no	1.00/1.00	18/18/0.00	0.0	0.0	1	0	1	0	10	10	3arm	1	nd	0.44	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------GCGCGGG--------------------	1	novel
		len	cloning frequencies
			T2S1
	--------------------------------------------------GGCGCGGGCCCGCCGCCC----------	18	1
rat	ccgcggcgcctctgcctgggctcccggcatctgggcgtccgccgagatccGGCGCGGGCCCGCCGCCCatgtgcgcgg
	******************************************************************************
rat	((((.((((....((.(((((((((((.((((.(((....))).))))))))...)))))))..))....))))))))	0.850 -41.90

rat

chromosome:13:78400295:78400372:-1

intergenic

block331965 [novel_lenNOK_gcHIGH_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	0.999	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	16	11	5arm	1	nd	0.39	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------CCCGGGG--------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	----------------TCCCGGGGGGGCGGGGGG----------------------------------------------------------	18	1
rat	agtgacagactaagatTCCCGGGGGGGCGGGGGGcaaaacaggttcaggcaggctttctctaccattgtactcctaggtggctccatgacat
	********************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000009900 ENSRNOG00000007324 NP_001099458.1
rat	.(((.((.....((...((..((((..(((.((.......(((((......)))))......)).)))..))))..))...))...)).)))	0.450 -18.22

rat

chromosome:13:110691495:110691586:1

Same_strand|Intronic_coding|ENSRNOT00000009900|ENSRNOG00000007324 ## ENSRNOG00000007324|protein_coding|NP_001099458.1|plexin A2 [Source:RefSeq_peptide;Acc:NP_001099458] ## {Repeats: dust 110691515 110691528 0 class=dust}

block334637 [novel_lenNOK_gcHIGH_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	0.027	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	18	15	5arm	3	nd	0.56	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------CCUCCCC----------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	------------------CCCTCCCCGCGCCCCGCC------------------------------------------------------------------	18	1
rat	gtaattaagacgtcacctCCCTCCCCGCGCCCCGCCccctcgccctcattccacgaagaggtctgaggatgcagccagggaaacaaatgattccttttttac
	******************************************************************************************************
rat	((((..(((..((((......((((...((...((..(((((.((((.(((...)))))))..)))))..)).))..))))......))))..)))..))))	0.940 -26.50

rat

chromosome:14:4740418:4740519:-1

intergenic

block334721 [novel_lenNOK_gcHIGH_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	0.067	no	no	0.94/0.94	18/18/0.00	0.0	0.0	1	0	1	0	18	15	5arm	3	nd	0.56	3	1	1	na	na

		reads	miRBase family seed
seed	-------------------CCUCCCC---------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	------------------CCCTCCCCGCGCCCCGCC-----------------------------------------------------------------	18	1
rat	gtaattaagacgtcacctCCCTCCCCGCGCCCCGCCccctcgccctcattccacgaagaggtctgaggatgcagccagggaaacaaatgattcctttttac
	*****************************************************************************************************
rat	((((..(((..((((......((((...((...((..(((((.((((.(((...)))))))..)))))..)).))..))))......))))..))).))))	0.940 -24.60