miR-Intess: classification

other hairpins

novel_shortStem_loopOverlap_bulgeHIGH (41 loci)

block2217151 [novel_shortStem_loopOverlap_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	0.044	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	1	-2	3arm_loop	1	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------ACCUCAC-------------	1	novel
		len	cloning frequencies
			T4S2
	--------------------GACCTCACGTAGAACCTCTG-	20	1
rat	ccagctctgaggtgagggctGACCTCACGTAGAACCTCTGg
	*****************************************
rat	((((.((((..((((((.....)))))).))))....))))	1.000 -16.30

rat

chromosome:7:60043486:60043526:1

intergenic

block2281703 [novel_shortStem_loopOverlap_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	0.162	no	no	0.40/0.40	20/20/1.00	0.0	0.0	1	0	1	0	1	-3	5arm_loop	1	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	--GGUCUGA--------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	-TGGTCTGATTCAGTCTTAAG--------------------------------------------	20	1
rat	gTGGTCTGATTCAGTCTTAAGagaaaagacacagagactgtacaaattatatagtgggacagcac
	*****************************************************************
rat	((.((((.((((((((((...............)))))))............))).)))).))..	0.400 -12.36

rat

chromosome:8:13542050:13542114:-1

intergenic

block2412929 [novel_shortStem_loopOverlap_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	0.113	no	no	0.65/0.65	23/23/1.00	0.0	0.0	1	0	1	0	2	-4	5arm_loop	1	nd	0.30	5	1	1	na	na

		reads	miRBase family seed
seed	---UCCCCUG------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	--CTCCCCTGTGGGCCCCTGCAAAA---------------------------------------------------------	23	1
rat	tgCTCCCCTGTGGGCCCCTGCAAAAtcagctcctctcctctcctcttccagcggggatctactctagaaggcaacgtggagc
	**********************************************************************************
rat	.((((((((((((..((((((.............................))))))..))))......)))......)))))	0.540 -21.55

rat

chromosome:8:63509407:63509488:1

intergenic

block2517366 [novel_shortStem_loopOverlap_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	0.165	no	no	0.76/0.76	21/21/1.00	0.0	0.0	1	0	1	0	3	-3	5arm_loop	1	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	----CACCGGU--------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	---CCACCGGTGTTGCCAGGCCGG-------------------------	21	1
rat	catCCACCGGTGTTGCCAGGCCGGacgctttgcagcaagcctgtgtgtg
	*************************************************
	-----------------------------------------------------------	ENSRNOT00000043627 ENSRNOG00000011841 Mtap2
	-----------------------------------------------------------	ENSRNOT00000045766 ENSRNOG00000011841 Mtap2
	-----------------------------------------------------------	ENSRNOT00000037974 ENSRNOG00000011841 Mtap2
	-----------------------------------------------------------	ENSRNOT00000046576 ENSRNOG00000011841 Mtap2
rat	((..(((.((((((((.((((.....)))).)))))..))).)))..))	1.000 -17.90

rat

chromosome:9:65201245:65201293:-1

block2529365 [novel_shortStem_loopOverlap_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	0.025	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	2	-2	3arm_loop	1	nd	0.29	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------AGCUCAC---------------	1	novel
		len	cloning frequencies
			T2S1
	----------------------------CAGCTCACTCTGACTCTGGAC--	21	1
rat	atgtgcacagagtgtggcaatctaacctCAGCTCACTCTGACTCTGGACat
	***************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000038528 ENSRNOG00000016165 RGD1561963_predicted
rat	((((.(((((((((.(((............))))))))))....)).))))	1.000 -14.90

rat

chromosome:9:79968003:79968053:-1

block2738883 [novel_shortStem_loopOverlap_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	0.116	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	1	-2	3arm_loop	1	nd	0.25	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------ACCAUCC-------------	1	novel
		len	cloning frequencies
			T5S1
	-----------------------------TACCATCCAGAGTCCCTGGA-	20	1
rat	gtccacatccttcctttgaggtggggagtTACCATCCAGAGTCCCTGGAc
	**************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<-----------	ENSRNOT00000017312 ENSRNOG00000012294 Heph
rat	(((((........(((((.(((((.......))))))))))....)))))	0.510 -15.00

rat

chromosome:X:84043011:84043060:-1

novel_Multihit_loopOverlap_randfoldOK_nonpairedHIGH (40 loci)

block211110 [novel_Multihit_loopOverlap_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
no	0.002	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	16	-4	3arm_loop	64	nd	0.41	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------CCUGAGC------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-------------------------------------------TCCTGAGCAGCTCCTGAACTCC----------------	22	1
rat	gctcctgagcagctcctgagnnnctcctgagcagctcctgagcTCCTGAGCAGCTCCTGAACTCCtgagcagctcctgagc
	*********************************************************************************
rat	((((..((((.((((..(((....((..((((.((((..........)))).))))..)).)))..)))).))))..))))	0.430 -30.30

rat

chromosome:12:8620205:8620285:1

intergenic ## {Repeats: trf 7367 7389 0 class=trf,dust 8620249 8620271 0 class=dust,trf 7357 7379 0 class=trf}

block211118 [novel_Multihit_loopOverlap_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
no	0.001	no	no	0.59/0.59	22/22/1.00	0.0	0.0	1	0	1	0	25	-4	3arm_loop	64	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------CCUGAGC---------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-----------------------------------------------------------TCCTGAGCAGCTCCTGAACTCC-------------------------	22	1
rat	gctcctgagctcctgagcaactcctgaacttttgagcagatccggagcagctcctgaacTCCTGAGCAGCTCCTGAACTCCtgagcagctcctgagctcctgagca
	**********************************************************************************************************
rat	((((..((((((..((((..(((...........((.((.((.(((((.((((..........)))).))))).)).)).)))))..))))..))))))..)))).	0.610 -41.30

rat

chromosome:12:8623449:8623554:1

intergenic ## {Repeats: dust 8623517 8623539 0 class=dust,trf 4097 4119 0 class=trf,trf 4107 4129 0 class=trf}

block803456 [novel_Multihit_loopOverlap_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
no	0.002	no	no	0.42/0.42	24/24/1.00	0.0	0.0	1	0	1	0	36	-4	3arm_loop	17	19	0.33	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------CCCCACC----------------------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	--------------------------------------------------------TCCCCACCAAATCAGTGTCTTAAT------------------------------------	24	1
rat	tctgtccaatgcagctgaagggacagaaggcagcaacttgagagctggtatgcatgTCCCCACCAAATCAGTGTCTTAATagctgccttcttctcccaggtctcagaaactacagg
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000046676 ENSRNOG00000031774 RGD1565104_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000044037 ENSRNOG00000031774 RGD1565104_predicted
rat	.((((....((..(((...((((.((((((((((...((((((((((((.((..((....)).)).)))))).))))))..))))))))))..)))).)))..))......)))).	0.980 -40.30

rat

chromosome:19:24091177:24091292:1

block961920 [novel_Multihit_loopOverlap_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
no	0.008	no	no	0.64/0.64	22/22/1.00	0.0	0.0	1	0	1	0	15	-3	3arm_loop	46	nd	0.41	3	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------CUGGGAG-----------------------------	1	novel
		len	cloning frequencies
			T3S1
	-------------------------------GCTGGGAGTTAGGCTGGATGCC---------------	22	1
rat	ggctcatccacagacatctcacactctccctGCTGGGAGTTAGGCTGGATGCCtgctgtgtgggagct
	********************************************************************
rat	(((((.(((((((.((((.((..(((((((....)))))..))..))))))....))))).)))))))	0.410 -27.80