miR-Intess: classification

other hairpins

block1696194 [novel_loopOverlap]

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	0.154	no	no	0.52/0.52	21/21/1.00	0.0	0.0	2	0	1	0	17	-2	3arm_loop	1	nd	0.29	2	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------AAACCUA------------------------------	2	novel
		len	cloning frequencies
			T5S1
	----------------------------------------------AAAACCTAGCCCTCTGGACAC-----------------	21	2
rat	atgagaaactttacttctgtgccttagatgcagcaggttgcctttaAAAACCTAGCCCTCTGGACACccaaatgagtgtcttat
	************************************************************************************
rat	((((((.((((.......(((((..(((....(((((((.........))))).))..))))).)))......)))).))))))	0.970 -17.92

rat

chromosome:4:164261647:164261730:1

intergenic

block1696403 [novel_loopOverlap]

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	0.361	no	no	0.26/0.27	22/23/1.00	0.3	0.0	3	0	1	0	21	-3	3arm_loop	1	nd	0.23	3	3	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------AAAGAAC------------------------------------	2	novel
seed	----------------------------------------------------------AAGAACC-----------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------------------------------------TAAAGAACCTTCTTTTAGTAACA---------------------	23	2
	---------------------------------------------------------AAAGAACCTTCTTTTAGTAACA---------------------	22	1
rat	tgcaatatgtagacattaacaagggatggtctggaggtcactgtcaggattctgcaTAAAGAACCTTCTTTTAGTAACAtacccaaagtgactgcttggc
	****************************************************************************************************
rat	.((.....((((.((((.....((((((..(((((((........(((.((((......))))))).)))))))...))).)))..)))).))))...))	0.880 -21.70

rat

chromosome:4:164270269:164270368:1

intergenic

block1708199 [novel_loopOverlap]

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	0.408	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	24	-4	3arm_loop	1	nd	0.27	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------CCGCGUU--------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	--------------------------------------------------ACCGCGTTTGCGACTGGGACTT------------------------	22	1
rat	ggcggtggctggagggacttgtcggtgttgagtttgcctcagcgcactcgACCGCGTTTGCGACTGGGACTTagccacgatcctgagggagctgct
	************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042270 ENSRNOG00000001811 Fgfr1op2
rat	((((((..((...((((....(((..(((((((....(((((((((..((....))..)))).))))))))))))..)))))))..))..))))))	0.750 -36.70

rat

chromosome:4:184153427:184153522:1

Same_strand|Boundary_non-coding|ENSRNOT00000002476|ENSRNOG00000001811 ## Same_strand|Intronic_non-coding|ENSRNOT00000042270|ENSRNOG00000001811 ## ENSRNOG00000001811|protein_coding|Fgfr1op2|FGFR1 oncogene partner 2 homolog (Wound-inducible transcript 3.0 protein) (Wit3.0). [Source:UniProtKB/Swiss-Prot;Acc:Q6TA25] ## {SimpF: oe = 0.84 1 CpG}

block1773154 [novel_loopOverlap]

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	0.50/0.50	20/20/1.00	0.0	0.0	2	0	1	0	39	-2	3arm_loop	1	nd	0.30	3	2	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------CCUGGGU---------------------------------------------------	2	novel
		len	cloning frequencies
			T5S2
	-------------------------------------------------------------TCCTGGGTATGGAATCCTGT---------------------------------------	20	2
rat	caggtcatgactattggcaatgagtggttttgataccccaaggttcttttccagctttcctTCCTGGGTATGGAATCCTGTggcatccatgaaactacattcaattccatcatgaagtgt
	************************************************************************************************************************
rat	((..((((((....(((...((((((((((((((.((.((.((((((..(((((.........)))))...)))))).)).)).)))...))))))))..)))...)))))))))..)).	0.990 -33.70

rat

chromosome:5:126882083:126882202:-1

intergenic

block1840911 [novel_loopOverlap]

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	0.338	no	no	0.65/0.65	20/20/1.00	0.0	0.0	2	0	1	0	19	-1	3arm	1	nd	0.30	2	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------GGCUAGG-------------------------------	2	novel
		len	cloning frequencies
			T3S1
	----------------------------------------------GGGCTAGGATGGGAACGCAC-------------------	20	2
rat	cccagcctttgaatggattcaatgtaggagcgccctccttctttctGGGCTAGGATGGGAACGCACccgcagccagggggctcgg
	*************************************************************************************
rat	((.((((((....(((......((..((.((((((((((.((.....))..)))).)))..))).))..)).))).)))))).))	0.960 -29.80

rat

chromosome:5:64711804:64711888:1

intergenic ## {SimpF: oe = 0.79 1 CpG}

block1884057 [novel_loopOverlap]

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	0.064	no	no	0.62/0.62	21/21/1.00	0.0	0.0	1	0	1	0	5	-1	3arm	1	nd	0.14	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------UGAGGAG------------------	1	novel
		len	cloning frequencies
			T4S2
	----------------------------------------CTGAGGAGGCAGACATTCCCG-----	21	1
rat	ggcctctcgggctgtgtcaacttctaaacttcacttctacCTGAGGAGGCAGACATTCCCGattcc
	******************************************************************
rat	......(((((..(((((..(((((.....(((........))))))))..))))).)))))....	1.000 -17.80

rat

chromosome:5:148034596:148034661:1

intergenic

block1920397 [novel_loopOverlap]

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	0.071	no	no	0.50/0.50	24/24/1.00	0.0	0.0	1	0	1	0	23	-2	3arm_loop	1	nd	0.25	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------CCUUGCU---------------------------------------	1	novel
		len	cloning frequencies
			T4S2
	-------------------------------------------------ACCTTGCTTCCTGAAACCAACGTC-----------------------	24	1
rat	gctaaattatattaagggaatatgttgtaatcagaaggggtaggaagggACCTTGCTTCCTGAAACCAACGTCaattccatgaactatggagagta
	************************************************************************************************
	----------------------------------------------------------------------------------------------------------	ENSRNOT00000042760 ENSRNOG00000030768 AC157610.2
rat	(((...(((((((...(((((((((((...((((..((((((((.......))))))))))))...))))))..)))))...)).)))))..))).	0.950 -22.70

rat

chromosome:6:26057118:26057213:-1

block1920568 [novel_loopOverlap]

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	0.578	no	no	0.61/0.61	23/23/1.00	0.0	0.0	1	0	1	0	14	-1	5arm_loop	1	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	---------------GGGUUAU----------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	--------------GGGGTTATGTAGCAGGGCTCGTC-------------------------------------------	23	1
rat	cggctcggtttcctGGGGTTATGTAGCAGGGCTCGTCggctcgcgagacctcctgctgccctcgcccgcgtcctagcgcg
	********************************************************************************
rat	(((((.((.....((((((...((((((((.(((((......)))))....))))))))....)))).)).)).))).))	0.460 -30.60

rat

chromosome:6:26294883:26294962:-1

intergenic ## {SimpF: oe = 0.95 -1 CpG}

block2113342 [novel_loopOverlap]

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	0.428	no	no	0.62/0.65	20/22/1.00	0.0	1.0	3	0	2	0	38	-4	3arm_loop	3	nd	0.27	3	3	2	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------UCAGGGG----------------------------------------------------	3	novel
		len	cloning frequencies
			T1S1	T3S1
	-------------------------------------------------------GTCAGGGGCAGAGCAGACACAG--------------------------------------	22	1	-
	-------------------------------------------------------GTCAGGGGCAGAGCAGACAC----------------------------------------	20	1	-
	-------------------------------------------------------GTCAGGGGCAGAGCAGACACA---------------------------------------	21	-	1
rat	gccccaccccagcaatgggcagagaccccttgttaatggtgttgttcttctttcaGTCAGGGGCAGAGCAGACACAGgcctttgttcatcctagcttgatgcctggcttggtggc
	*******************************************************************************************************************
rat	((((((..(((((((((..(((((.((...........((((((((((.((((......)))).))))))).))).)).)))))..)))..........))).)))..))).)))	0.460 -35.50

rat

chromosome:7:54288671:54288785:-1

intergenic

novel_bulgeHIGH (1520 loci)

block1776 [novel_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	0.027	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	20	1	3arm	1	nd	0.29	5	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------UCAUGAG---------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-------------------------------------------------------ATCATGAGATACATGGGTCCC--------------------	21	1
rat	gcttacacctactaggttttccttttctccacatttgtctcccgtggtttttctgATCATGAGATACATGGGTCCCcagcctgggtgtcctgggct
	************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003150 ENSRNOG00000002294 LOC687335
rat	((((((((((...(((((..........((.(((.((((((..((((((.....)))))))))))).))))).....)))))))))))...)))).	0.500 -26.96