miR-Intess: classification

other hairpins

novel_5varHIGH_randfoldOK_nonpairedHIGH_bulgeHIGH (7 loci)

block1730478 [novel_5varHIGH_randfoldOK_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	0.002	no	no	0.39/0.39	23/23/1.00	2.0	2.0	2	0	2	0	12	16	3arm	1	nd	0.35	4	2	2	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------GUGAUGU---------------------------	1	miR-466c
seed	-----------------------------------------------------------------------------CACUGUG-------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2
	----------------------------------------------------------------------------TCACTGTGATGTTATGAGAGCAA----------------	23	-	1
	--------------------------------------------------------------------------------TGTGATGTTATGAGAGCAATGGA------------	23	1	-
rat	cgtaatgggtagaacatagctttcagtcagttactcaaatcaccagtataaacattcgtaatgttagaaggtgattTCACTGTGATGTTATGAGAGCAATGGAaaccctagttat
	*******************************************************************************************************************
rat	.(((((((((....(((.(((((((....(((((..((((((((......(((((.....)))))....))))))))....)))))....))))))).)))...))))..)))))	0.990 -33.10

rat

chromosome:5:40707748:40707862:-1

intergenic

block1881274 [novel_5varHIGH_randfoldOK_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	0.002	no	no	0.64/0.65	20/22/1.00	1.5	0.5	2	0	1	0	5	3	3arm	1	nd	0.35	4	2	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------UCUCACC--------------------	1	novel
seed	---------------------------------------------------CACCACC-----------------	1	novel
		len	cloning frequencies
			T1S2
	-----------------------------------------------CTCTCACCACCCCCTTCCCACA------	22	1
	--------------------------------------------------TCACCACCCCCTTCCCACAG-----	20	1
rat	caggaaaagcaagaatacagggtggggcgtggtcaggaaggagacttCTCTCACCACCCCCTTCCCACAGcctgt
	***************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000056497 ENSRNOG00000037340
	.............................................................................>>>>>>>>	ENSRNOT00000056496 ENSRNOG00000037340
rat	((((...............(((.((((.(((((.((((((....)))).)).)))))))))..)))....)))).	1.000 -32.71

rat

chromosome:5:144228233:144228307:1

Same_strand|Boundary_non-coding|ENSRNOT00000056496|ENSRNOG00000037340 ## Same_strand|Intronic_coding|ENSRNOT00000056497|ENSRNOG00000037340 ## ENSRNOG00000037340|protein_coding||

block2386274 [novel_5varHIGH_randfoldOK_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	0.002	no	no	0.50/0.55	19/22/0.75	2.0	3.2	4	0	2	0	21	16	3arm	1	nd	0.53	5	4	2	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------CCAGGAG---------------------------------------	2	novel
seed	------------------------------------------------------------------------------GAGAACU-----------------------------------	2	miR-146a/146b
		len	cloning frequencies
			T3S1	T3S2
	-------------------------------------------------------------------------GCCAGGAGAACTAGGAGAAC---------------------------	20	-	1
	-------------------------------------------------------------------------GCCAGGAGAACTAGGAGAA----------------------------	19	-	1
	-----------------------------------------------------------------------------GGAGAACTAGGAGAACAGAC-----------------------	20	1	-
	-----------------------------------------------------------------------------GGAGAACTAGGAGAACAGACAC---------------------	22	1	-
rat	aggaagtgtccaggcaagcagggcctaacctcactttccacccacaaagtcacggaagtgaggaaatggggtgGCCAGGAGAACTAGGAGAACAGACACctgcctgtctcttctctttca
	************************************************************************************************************************
rat	.(((((.....(((((.(((((.((((..(((.((..((((((......((((....)))).......))))))..)))))...))))..........))))).))))).....))))).	0.970 -45.32

rat

chromosome:8:24924087:24924206:1

intergenic

block2551529 [novel_5varHIGH_randfoldOK_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	0.003	no	no	0.45/0.53	19/23/0.86	2.3	2.7	7	0	2	0	7	15	5arm	1	nd	0.38	4	7	2	na	na

		reads	miRBase family seed
seed	------------ACUCAGU--------------------------------------------------------------------------	3	novel
seed	---------GGAACUC-----------------------------------------------------------------------------	2	novel
seed	---------------CAGUCAG-----------------------------------------------------------------------	1	novel
seed	--------UGGAACU------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T5S1
	-----------AACTCAGTCAGAATGGAGCCCAA-----------------------------------------------------------	23	1	2
	--------TGGAACTCAGTCAGAATGGAG----------------------------------------------------------------	21	-	2
	--------------TCAGTCAGAATGGAGCCCA------------------------------------------------------------	19	-	1
	-------ATGGAACTCAGTCAGAATGGAG----------------------------------------------------------------	22	-	1
rat	cttaggcATGGAACTCAGTCAGAATGGAGCCCAAtcccaacctgaacacaagagtgaaaaagtgggcggggctccaggaggggtcgtctgaga
	*********************************************************************************************
rat	(((((((...((.(((..((....((((((((...((((.......(((....)))......))))..)))))))).)).)))))))))))).	0.990 -36.52

rat

chromosome:9:105324904:105324996:-1

intergenic

block2357159 [novel_5varHIGH_randfoldOK_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	0.003	no	no	0.58/0.63	19/24/0.75	3.2	1.5	4	0	3	0	6	26	3arm	1	nd	0.37	4	4	3	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------------------------------------------GGACACC-------------------	2	novel
seed	--------------------------------------------------------------------------------------------CCGGACA---------------------	1	novel
seed	-----------------------------------------------------------------------------------------UUGCCGG------------------------	1	novel
		len	cloning frequencies
			T1S1	T3S1	T3S2
	---------------------------------------------------------------------------------------------CGGACACCACGAATGACTCCC------	21	1	1	-
	-------------------------------------------------------------------------------------------GCCGGACACCACGAATGAC----------	19	-	-	1
	----------------------------------------------------------------------------------------CTTGCCGGACACCACGAATGACTC--------	24	-	-	1
rat	cgcatgcgcagcactcccgttgtccgctacgggtagaggttgcccgccttttcctcagctctctcaggactgagccccagcctctgctCTTGCCGGACACCACGAATGACTCCCcatgct
	************************************************************************************************************************
rat	.(((((...((((.((....((((((.((.((((((((((((...((....((((.((....)).))))....))..)))))))))))).)).))))))....)).)).))...))))).	0.990 -43.60

rat

chromosome:8:114484262:114484381:-1

intergenic

novel_cloningOK_loopOverlap_nonpairedHIGH (7 loci)

block201434 [novel_cloningOK_loopOverlap_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	0.835	no	no	0.30/0.32	19/20/0.71	0.2	0.0	25	0	9	0	16	-3	3arm_loop	2	nd	0.42	3	38	9	na	na

		reads	miRBase family seed
seed	-----------------------------------GAUGCCA----------------------------	27	novel
seed	------------------------------------AUGCCAU---------------------------	11	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T4S1	T4S2	T5S1	T5S2
	----------------------------------AGATGCCATAAAACTATTCA----------------	20	5	2	5	1	-	-	3	11	-
	-----------------------------------GATGCCATAAAACTATTCA----------------	19	-	1	4	-	1	1	2	1	1
rat	gaaaatgcctgcttgcctatagccccgtatgtcaAGATGCCATAAAACTATTCAgagcaactggatgtcc
	**********************************************************************
rat	((.....(((((((....((((.....((((.((...)).))))...))))...)))))...))...)).	0.650 -9.20

rat

chromosome:12:40934786:40934855:-1

intergenic

block268214 [novel_cloningOK_loopOverlap_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	0.463	no	no	0.42/0.50	18/22/0.80	0.0	0.6	7	0	3	0	40	-2	3arm_loop	1	nd	0.35	2	15	3	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------AGCAAUG------------------------------------------------------	14	novel
seed	------------------------------------------------------------GCAAUGA-----------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S1	T3S2
	----------------------------------------------------------CAGCAATGATGACATCTGAGCC----------------------------------------	22	-	1	5
	----------------------------------------------------------CAGCAATGATGACATCTGAG------------------------------------------	20	1	1	2
	----------------------------------------------------------CAGCAATGATGACATCTG--------------------------------------------	18	-	1	1
	-----------------------------------------------------------AGCAATGATGACATCTGAGCCT---------------------------------------	22	-	1	-
	----------------------------------------------------------CAGCAATGATGACATCTGAGC-----------------------------------------	21	-	-	1
	----------------------------------------------------------CAGCAATGATGACATCTGA-------------------------------------------	19	-	-	1
rat	gacttccctagtcagagtaacgagtcaagaagtaacagcatagtgggatctgcaaaccCAGCAATGATGACATCTGAGCCtggcactaagtctctgcaagtcatgttccctagtggaagt
	************************************************************************************************************************
rat	.((((((((((..((.((.((..((..((((((..((((.(((((..((((((.......)))..)))..)).))).)).))..)))...)))..))..)).)).))..)))).))))))	0.910 -28.50

rat

chromosome:13:72109460:72109579:-1

intergenic

block1059695 [novel_cloningOK_loopOverlap_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	0.398	no	no	0.47/0.50	18/20/0.71	0.0	0.4	14	0	7	0	18	-3	5arm_loop	1	nd	0.39	3	14	7	na	na

		reads	miRBase family seed
seed	-------------------GGAAAAC------------------------------------------------------	14	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T4S1	T4S2	T5S1
	------------------GGGAAAACGCAACCTTTGAC------------------------------------------	20	2	1	1	1	3	2	-
	------------------GGGAAAACGCAACCTTTGA-------------------------------------------	19	-	-	1	-	1	-	-
	------------------GGGAAAACGCAACCTTTG--------------------------------------------	18	-	-	-	-	1	-	1
rat	ccaaacgcgctcgggcgcGGGAAAACGCAACCTTTGACattgagggtgaacgttggccgccgccccaagaaccctgagga
	********************************************************************************
rat	((.......((.((((((((...((((..((((((......))))))...))))..)))).))))..))........)).	0.490 -25.36

rat

chromosome:20:5083921:5084000:-1

intergenic

block1297691 [novel_cloningOK_loopOverlap_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	0.705	no	no	0.32/0.42	18/23/0.80	0.3 0.0	0.7 0.0	26 1	0 0	6 1	0 0	14 23	-4 -9	5arm_loop 5arm_loop	1 1	nd nd	0.32 0.58	3 10	44	6	na	na

		reads	miRBase family seed
seed	----------------AUGCCAU---------------------------------------------------------	29	novel
seed	---------------UAUGCCA----------------------------------------------------------	11	novel
seed	-----------------UGCCAUU--------------------------------------------------------	3	novel
seed	------------------------UCUGAGA-------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T2S2	T3S1	T3S2	T4S2	T5S2
	---------------TATGCCATTTCTGAGACACA---------------------------------------------	20	1	1	2	4	-	-
	---------------TATGCCATTTCTGAGACACAAT-------------------------------------------	22	-	1	3	1	1	-
	---------------TATGCCATTTCTGAGACACAA--------------------------------------------	21	-	-	2	2	1	1
	---------------TATGCCATTTCTGAGACAC----------------------------------------------	19	-	-	2	2	1	-
	--------------ATATGCCATTTCTGAGACACAA--------------------------------------------	22	-	-	2	-	2	-
	--------------ATATGCCATTTCTGAGACACA---------------------------------------------	21	-	-	1	3	-	-
	---------------TATGCCATTTCTGAGACACAATA------------------------------------------	23	-	1	1	1	-	-
	--------------ATATGCCATTTCTGAGACACAAT-------------------------------------------	23	1	-	1	-	1	-
	----------------ATGCCATTTCTGAGACACA---------------------------------------------	19	-	2	-	-	-	-
	----------------ATGCCATTTCTGAGACACAA--------------------------------------------	20	-	-	-	1	-	-
	---------------TATGCCATTTCTGAGACA-----------------------------------------------	18	-	-	-	1	-	-
	-----------------------TTCTGAGACACAATAACAA--------------------------------------	19	-	-	1	-	-	-
rat	gttattcaaaagggATATGCCATTTCTGAGACACAATaacaaaaaatgtttgaggaaattattttgcttctatttatagc
	********************************************************************************
rat	(((((....(((.((.(((...(((((.(((((.............))))).)))))..))).)).)))......)))))	0.610 -9.22

rat

chromosome:2:150005958:150006037:1

intergenic

block1600472 [novel_cloningOK_loopOverlap_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	0.112	no	no	0.47/0.74	18/25/0.83	0.0 0.0	0.0 0.0	4 23	0 0	2 6	0 0	7 19	-1 -15	5arm_loop 5arm_loop	1 1	nd nd	0.32 0.81	2 16	48	7	na	na

		reads	miRBase family seed
seed	--------------------GGCCUCC------------------------------------------	40	novel
seed	--------CGCAAGC------------------------------------------------------	7	novel
seed	-------------------UGGCCUC-------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T4S2	T5S1
	-------------------TGGCCTCCATTTCTCAGTTCT-----------------------------	21	4	1	-	3	1	1	23
	-------------------TGGCCTCCATTTCTCAGTTC------------------------------	20	1	-	-	-	-	-	3
	-------TCGCAAGCCCGCTGGCCTC-------------------------------------------	19	-	-	-	-	-	-	4
	-------TCGCAAGCCCGCTGGCCTCCA-----------------------------------------	21	-	-	1	-	-	-	1
	-------------------TGGCCTCCATTTCTCAGTT-------------------------------	19	-	-	-	-	-	-	2
	-------------------TGGCCTCCATTTCTCAGT--------------------------------	18	-	-	-	-	-	-	1
	------------------CTGGCCTCCATTTCTCAGTTCT-----------------------------	22	-	-	-	-	-	-	1
	-------TCGCAAGCCCGCTGGCCTCCATTTC-------------------------------------	25	-	-	-	-	-	-	1
rat	ttttgcatcgcaagcccgcTGGCCTCCATTTCTCAGTTCTaaggtgagcaaggctcgcccacgcagagc
	*********************************************************************
rat	((((((...((.((((.(((.((((................)))).)))..)))).))....)))))).	0.970 -21.09