miR-Intess: classification

other hairpins

novel_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH (242 loci)

block2325213 [novel_shortStem_loopOverlap_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	0.224	no	no	0.45/0.45	22/22/1.00	0.0	0.0	2	0	2	0	1	-1	5arm_loop	1	nd	0.50	4	2	2	na	na

		reads	miRBase family seed
seed	--CAGAAGG----------------------------------------------	2	novel
		len	cloning frequencies
			T1S2	T5S1
	-TCAGAAGGCTTAGTAGCTGAGA--------------------------------	22	1	1
rat	cTCAGAAGGCTTAGTAGCTGAGAacttgaacttggcctacatcatcctatagagg
	*******************************************************
rat	(((...(((....(((((..((........))..)).))).....)))...))).	0.980 -11.90

rat

chromosome:8:72077664:72077718:-1

intergenic

block2325216 [novel_shortStem_loopOverlap_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	0.395	no	no	0.43/0.43	23/23/1.00	0.0	0.0	2	0	1	0	1	-1	3arm	1	nd	0.39	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------------GACUACA----------------	2	novel
		len	cloning frequencies
			T5S1
	--------------------------TGACTACAGTTGGTTTAAAGGGG-	23	2
rat	gtttcttctagaagtgtctattgtgtTGACTACAGTTGGTTTAAAGGGGc
	**************************************************
rat	((..(((((((..(((((.........))).))..))))....)))..))	0.940 -8.50

rat

chromosome:8:72077795:72077844:-1

intergenic

block843216 [novel_shortStem_loopOverlap_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	0.023	no	no	0.52/0.52	23/23/1.00	0.0	0.0	1	0	1	0	4	-4	5arm_loop	2	nd	0.39	5	1	1	na	na

		reads	miRBase family seed
seed	-----GGAAAGU------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----GGGAAAGTCCTCTCTGCTGAGAA---------------------------	23	1
rat	gctgGGGAAAGTCCTCTCTGCTGAGAAacagcaggaaagtaggttgtcctctgt
	******************************************************
rat	((.(((((....(((((((((((.....))))))...)).)))...))))).))	0.990 -19.00

rat

chromosome:1:49044307:49044360:-1

intergenic

block1321902 [novel_shortStem_loopOverlap_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	0.063	no	no	0.70/0.70	20/20/1.00	0.0	0.0	1	0	1	0	4	-4	5arm_loop	1	nd	0.40	5	1	1	na	na

		reads	miRBase family seed
seed	-----CGGAGCG-----------------------------------	1	novel
		len	cloning frequencies
			T4S1
	----GCGGAGCGCACTGAGAACCC-----------------------	20	1
rat	gggcGCGGAGCGCACTGAGAACCCtactttcccgtgagcccgagccc
	***********************************************
	............................................>>>>>>>>>>>>>	ENSRNOT00000021001 ENSRNOG00000015691 NP_001101183.1
rat	((((.(((.((.(((.((((.......))))..))).))))).))))	1.000 -19.80

rat

chromosome:2:200956607:200956653:1

intergenic

block1646344 [novel_shortStem_loopOverlap_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	0.108	no	no	0.65/0.65	20/20/1.00	0.0	0.0	1	0	1	0	2	-4	5arm_loop_3arm	10	nd	0.50	4	1	1	na	na

		reads	miRBase family seed
seed	---CCUGCUC-------------------------------	1	novel
		len	cloning frequencies
			T2S2
	--ACCTGCTCTCCTCACCTCCC-------------------	20	1
rat	gcACCTGCTCTCCTCACCTCCCggtcagctcaggcacctgc
	*****************************************
	---------------------------------------------------	ENSRNOT00000034549 ENSRNOG00000026748 RGD1306142_predicted
rat	(((..((((...((.(((....))).))....))))..)))	1.000 -9.20

rat

chromosome:4:66995243:66995283:1

Opposite_strand|Intronic_coding|ENSRNOT00000034549|ENSRNOG00000026748 ## ENSRNOG00000026748|protein_coding|RGD1306142_predicted| ## {Repeats: trf 823 843 0 class=trf}

novel_lenNOK_cloningHIGH (236 loci)

block1240 [novel_lenNOK_cloningHIGH]

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	0.046	no	no	0.50/0.53	18/21/0.03	0.0	0.0	114	0	10	0	24	1	5arm_loop	1	nd	0.28	3	163	10	na	na

		reads	miRBase family seed
seed	-------------------------GAGGUAG------------------------------------------------------------	163	let-7a/7b/7c/7d/7e/7f/7i/miR-98
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	------------------------TGAGGTAGTAACCCACGA--------------------------------------------------	18	19	22	11	16	13	8	7	25	4	4
	------------------------TGAGGTAGTAACCCACGAG-------------------------------------------------	19	4	2	3	4	3	2	2	5	1	3
	------------------------TGAGGTAGTAACCCACGAGT------------------------------------------------	20	-	-	2	-	-	-	1	-	-	-
	------------------------TGAGGTAGTAACCCACGAGTC-----------------------------------------------	21	-	1	-	-	-	-	-	1	-	-
rat	gctgccaacatggctggactcacaTGAGGTAGTAACCCACGAgtcatttttgaaagttcttccttcagtgtcgttctctgccataatgtagc
	********************************************************************************************
rat	(((((....(((((.((((.(((..((((.((.(((...((((.....))))...))))).))))..)))..))))...)))))...)))))	0.990 -25.70

rat

chromosome:10:2449148:2449239:-1

intergenic

block8263 [novel_lenNOK_cloningHIGH]

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	0.016	no	no	0.60/0.67	18/20/0.01	0.0	0.0	109	0	10	0	5	31	3arm	1	nd	0.11	1	239	10	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------------------UGGCCCU---------------	209	miR-328
seed	---------------------------------------------------------------------------------------------------GGCCCUC--------------	30	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-------------------------------------------------------------------------------------------------TTGGCCCTCTCTGGGGAA-----	18	109	21	4	2	6	6	4	11	10	2
	-------------------------------------------------------------------------------------------------TTGGCCCTCTCTGGGGAAG----	19	20	4	-	-	3	2	-	3	-	-
	--------------------------------------------------------------------------------------------------TGGCCCTCTCTGGGGAAG----	18	9	3	5	3	4	-	1	4	-	-
	-------------------------------------------------------------------------------------------------TTGGCCCTCTCTGGGGAAGA---	20	-	1	-	-	-	-	-	-	1	-
	--------------------------------------------------------------------------------------------------TGGCCCTCTCTGGGGAAGA---	19	-	-	-	1	-	-	-	-	-	-
rat	tcttcttacacttctgagaggttttgcttttacacagtgtaagcagtgcaaacagccatgtgtcttcaccggggcagaccaacatgtagctgtgtagTTGGCCCTCTCTGGGGAAgaagg
	************************************************************************************************************************
rat	.((((((...((((.((((((....(((.(((((((((....(((((.......(((..(((....)))...)))......)).))).)))))))))..))))))))).)))))))))).	0.600 -40.72

rat

chromosome:10:16442946:16443065:-1

intergenic

block35614 [novel_lenNOK_cloningHIGH]

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	0.063	no	no	0.42/0.50	18/20/0.06	0.0	0.1	103	0	4	0	17	10	5arm	1	nd	0.22	2	125	4	na	na

		reads	miRBase family seed
seed	------------------GGAAUUU-----------------------------------------------------------------	124	novel
seed	-----------------UGGAAUU------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T2S2	T4S1	T4S2
	-----------------TGGAATTTAAAGGGGGTG-------------------------------------------------------	18	-	-	40	48
	-----------------TGGAATTTAAAGGGGGTGG------------------------------------------------------	19	1	1	11	15
	-----------------TGGAATTTAAAGGGGGTGGG-----------------------------------------------------	20	-	-	3	5
	----------------ATGGAATTTAAAGGGGGTG-------------------------------------------------------	19	-	-	-	1
rat	cctgctctgaagaaagaTGGAATTTAAAGGGGGTGGgaggtagcaggggaggctgtaacctgagttgcttttggattcaccaagacagga
	******************************************************************************************
rat	((((.(((...........(((((((((((.(((...((((.((((......)))).))))..))).)))))))))))....))))))).	0.500 -24.96

rat

chromosome:10:76846121:76846210:-1

intergenic

block37403 [novel_lenNOK_cloningHIGH]

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	0.018	no	no	0.50/0.55	18/20/0.01	0.0	0.0	104	0	9	0	8	3	3arm	2	nd	0.17	2	116	9	na	na

		reads	miRBase family seed
seed	-------------------------------------------------AAAGAAG------------------	116	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	------------------------------------------------CAAAGAAGGAGAAGGGGT--------	18	23	11	12	21	13	5	10	6	14
	------------------------------------------------CAAAGAAGGAGAAGGGGTGG------	20	-	-	-	1	-	-	-	-	-
rat	aacccaaccatcttcaaaatttccttttatagtagagaaagcagatatCAAAGAAGGAGAAGGGGTggtcaggt
	**************************************************************************
rat	.(((..((((((((.....(((((((((...(((...........)))...))))))))).))))))))..)))	1.000 -17.80

rat

chromosome:10:81584883:81584956:-1

intergenic

block44094 [novel_lenNOK_cloningHIGH]

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	0.022	no	no	0.48/0.53	18/25/0.00	0.0	0.0	73	0	7	0	9	4	3arm	3	nd	0.26	3	84	7	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------AUUAGCA--------------------	84	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S2	T4S1	T5S1	T5S2
	----------------------------------------------------CATTAGCAGGCTTGGAAGC---------	19	2	2	1	1	1	73	1
	----------------------------------------------------CATTAGCAGGCTTGGAAGCCATTGA---	25	-	-	-	-	-	2	-
	----------------------------------------------------CATTAGCAGGCTTGGAAG----------	18	1	-	-	-	-	-	-
rat	ctctcagctctggcctccagtctagaggaggaatgttgggcagccagaccagCATTAGCAGGCTTGGAAGCcattgagaa
	********************************************************************************
rat	.((((((...((((.((((((((........((((((((.........))))))))...))))).))).)))))))))).	0.450 -28.90