miR-Intess: classification

other hairpins

block1879749 [novel_lenNOK_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	0.141	no	no	0.42/0.56	18/19/0.00	0.8 0.0 0.0	0.8 0.0 0.0	4 1 1	0 0 0	2 1 1	0 0 0	35 31 27	-5 3 7	3arm_loop 3arm 3arm	1 1 1	nd nd nd	0.16 0.17 0.11	1 1 1	6	4	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------GGAAGAG-------------------------------------------------	3	novel
seed	--------------------------------------------------------------------UUCAGGG-----------------------------------------	1	novel
seed	---------------------------------------------------------------AGAGAUU----------------------------------------------	1	novel
seed	------------------------------------------------------------------------GGGAACA-------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T5S1
	-----------------------------------------------------------CGGAAGAGATTCAGGGAAC--------------------------------------	19	-	-	-	3
	-----------------------------------------------------------------------AGGGAACAACAGTGAGGC---------------------------	18	1	-	-	-
	--------------------------------------------------------------AAGAGATTCAGGGAACAAC-----------------------------------	19	-	-	1	-
	-------------------------------------------------------------------ATTCAGGGAACAACAGTG-------------------------------	18	-	1	-	-
rat	tcagtgactgaggtcggtccgtttttggttttttgtttggtttttttttagtctcagtcCGGAAGAGATTCAGGGAACAACAGTGAGGCtagaaggctctgagacccagtgtctga
	********************************************************************************************************************
rat	((((..((((.((((((((...((((((((((((((...(((((((...((((((.........)))))).))))))).)))).))))))))))))))....))))))))..))))	0.640 -32.70

rat

chromosome:5:142201408:142201523:1

intergenic

block1890470 [novel_lenNOK_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	0.885	no	no	0.75/0.79	19/20/0.50	0.0	0.5	2	0	2	0	29	-1	5arm_loop	1	nd	0.26	2	2	2	na	na

		reads	miRBase family seed
seed	------------------------------CUGGGAG------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T3S2
	-----------------------------GCTGGGAGCTGAGCGCCGGA------------------------------------------------	20	1	-
	-----------------------------GCTGGGAGCTGAGCGCCGG-------------------------------------------------	19	-	1
rat	gtctgggggagcctgagtaggcgccggtcGCTGGGAGCTGAGCGCCGGAtcctctggcggcgggatcgcgggccgcagccgctgaggtgagtcggcg
	*************************************************************************************************
rat	(((.((....((((.(((.(((..((((..(((.((.(((..((((((.....)))))).)))..)).)))))))..)))))).))))...))))).	0.500 -41.60

rat

chromosome:5:155220726:155220822:1

intergenic ## {SimpF: oe = 0.94 1 CpG}

block1892759 [novel_lenNOK_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	0.145	no	no	0.47/0.47	19/19/0.00	0.0	0.0	1	0	1	0	15	-1	3arm	1	nd	0.26	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------CUGACAG--------------------------	1	novel
		len	cloning frequencies
			T1S1
	----------------------------------------------ACTGACAGCTTCCAGAGTT---------------	19	1
rat	gctgggggtgaccctgaccttggagctacgcgggagggtagcaaagACTGACAGCTTCCAGAGTTtggacacccagagtc
	********************************************************************************
rat	(((..(((((.((..(((.((((((((...(((..............)))..)))).)))).))).)).)))))..))).	0.870 -26.84

rat

chromosome:5:157912656:157912735:1

intergenic

block1899440 [novel_lenNOK_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	0.290	no	no	0.83/0.83	18/18/0.00	0.0	0.0	2	0	1	0	28	-2	3arm_loop	1	nd	0.11	1	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------GCGCGCU--------------------------------------	2	novel
		len	cloning frequencies
			T2S1
	--------------------------------------------------CGCGCGCTCTCCCTCCCC----------------------------	18	2
rat	ccgagggctcagcctgtgggctcgcgcacccgtggagcggggagcgtgcgCGCGCGCTCTCCCTCCCCgccccgcccgccgccaccccgcccccgg
	************************************************************************************************
rat	(((.((((...((..((((((..(((.......((((.((((((((((....)))))))))))))).)))...)))))).))......)))).)))	0.550 -50.00

rat

chromosome:5:166670930:166671025:1

intergenic ## {Repeats: dust 166671022 166671040 0 class=dust,GC_rich 1 37 1 class=Low_complexity,GC_rich 1 4 1 class=Low_complexity} ## {SimpF: oe = 0.85 1 CpG}

block1900115 [novel_lenNOK_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	0.248	no	no	0.63/0.63	19/19/0.00	0.0	0.0	1	0	1	0	43	-1	3arm	2	nd	0.16	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------GUGCUGC------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	----------------------------------------------------------AGTGCTGCTCCGGTACCGA-------------------------------------------	19	1
rat	aggggagaagtgggtggggcctaacgagcaggctaggaagtcggagtgggaggcgcttAGTGCTGCTCCGGTACCGAgtcgcgctcacgtttgtccttaagactcccttcggtgtctcca
	************************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000024106 ENSRNOG00000017895 Eno1
rat	.(((((((((.(((((((((..(((((((.((((.((...(((((((....(((((...))))))))))))..)).))))..))))..))).)))))....)))).))))....))))).	0.900 -46.70

rat

chromosome:5:167394578:167394697:1

block1929302 [novel_lenNOK_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	0.938	no	no	0.42/0.42	19/19/0.00	0.0	0.0	1	0	1	0	19	-2	3arm_loop	1	nd	0.21	1	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------CCUUAAG------------------------------	1	novel
		len	cloning frequencies
			T1S1
	--------------------------------------------------ACCTTAAGTGCAGAACTCA-------------------	19	1
rat	tcgtagggaataaatatgtctataatgagcttgtgacttttagatttgaaACCTTAAGTGCAGAACTCAgtaacggtcctcagatgac
	****************************************************************************************
rat	((((.((((.......(((.(((..((((.((.((((((..((.........)).)))).)).)))))))))))).))))...)))).	0.750 -11.80

rat

chromosome:6:43548485:43548572:-1

intergenic

novel (8516 loci)

block842 [novel]

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	0.214	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	9	9	3arm	1	nd	0.14	1	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------AGGACUG----------------------	1	novel
		len	cloning frequencies
			T3S1
	--------------------------------------------------------AAGGACTGTTGGTCGCCTGCA---------	21	1
rat	caaacatggctgtccagttggccagcatctgggaactgcactgtagacactgacatAAGGACTGTTGGTCGCCTGCAgctgttctg
	**************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003284 ENSRNOG00000002407 RGD1562597_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040132 ENSRNOG00000002407 RGD1562597_predicted
rat	.....(((((((..(((.((((((((((((........((.((....)).))......))).))))))))).))))))))))....	0.520 -25.24

rat

chromosome:10:1554727:1554812:-1

block970 [novel]

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	0.479	no	no	0.67/0.67	21/21/1.00	0.0	0.0	1	0	1	0	13	18	5arm	1	nd	0.14	2	1	1	na	na

		reads	miRBase family seed
seed	--------------GAAGCCU------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1
	-------------CGAAGCCTGCCGCTTGTCCTC-----------------------------------------------------------------------------------	21	1
rat	ttatttccggaaaCGAAGCCTGCCGCTTGTCCTCtacttccgcggggtcctggcgggtggcagtgacggagtgggtcccaggactagtggcgaggtgagcttcggcacggtgtgtgg
	*********************************************************************************************************************
rat	.(((..(((....((((((((((((((.(((((.....(((((...((((((........))).)))...)))))....))))).)))))).))....))))))...)))...))).	0.540 -44.40

rat

chromosome:10:1784998:1785114:-1

intergenic

block1237 [novel]

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	0.038	no	no	0.57/0.57	23/23/1.00	0.0	0.0	1	0	1	0	10	6	5arm	1	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	-----------CUUGAGG----------------------------------------------------------------------------------	1	miR-327
		len	cloning frequencies
			T5S1
	----------CCTTGAGGGATGACTGTACCAGG-------------------------------------------------------------------	23	1
rat	ctggtagatgCCTTGAGGGATGACTGTACCAGGcagctccctacaaaaagaggtgctgattagagttttcacactcagaattcataaggtttcttctgga
	****************************************************************************************************
rat	((((.(((.((((((((.((.((((.((...((((.(((..........))).))))...)).)))).))...)))).........)))).))).)))).	0.480 -28.20

rat

chromosome:10:2442984:2443083:-1

intergenic

block1771 [novel]

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	0.771	no	no	0.30/0.30	23/23/1.00	0.0	0.0	1	0	1	0	16	8	5arm	1	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------ACCCUGA------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	----------------AACCCTGAGATAAATATTCTTCA---------------------------------------------------------------------------	23	1
rat	atcaaatgcatcacacAACCCTGAGATAAATATTCTTCAtaccatttaaaaccccagaaatgatgtcctttcagaatgttcttaacttagcaacctgtgaattgaggagtggtt
	******************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000003150 ENSRNOG00000002294 LOC687335
rat	((((....(((((((.....(((((.((((((((((..(((.(((((..........))))).)))......))))))))..)).))))).....)))))..)).....)))).	0.510 -14.50