miR-Intess: classification

other hairpins

novel_lenNOK_cloningOK_loopOverlap_randfoldOK_nonpairedHIGH (11 loci)

block346281 [novel_lenNOK_cloningOK_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	0.005	no	no	0.44/0.50	18/21/0.59	0.0	0.5	11	0	4	0	33	-3	3arm_loop	1	nd	0.35	3	17	4	na	na

		reads	miRBase family seed
seed	-------------------------------------------------AAAGUGG---------------------------------------------	17	novel
		len	cloning frequencies
			T1S1	T2S1	T3S1	T5S1
	------------------------------------------------TAAAGTGGGGGGTTTTTGGG---------------------------------	20	6	2	-	1
	------------------------------------------------TAAAGTGGGGGGTTTTTG-----------------------------------	18	3	1	1	-
	------------------------------------------------TAAAGTGGGGGGTTTTTGG----------------------------------	19	1	1	-	-
	------------------------------------------------TAAAGTGGGGGGTTTTTGGGT--------------------------------	21	1	-	-	-
rat	agatgcaggtcctcagacttgtgcaacacatgcacctgaccttctgttTAAAGTGGGGGGTTTTTGGGtgggggtggagctggagagggaagacctgggtt
	*****************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000002860 ENSRNOG00000002085 LOC498350
rat	.(((.((((((.((...(((..((..(((...((((((((((((..((...))..)))))))...)))))...)))..))....))).)).)))))).)))	1.000 -38.90

rat

chromosome:14:33415913:33416013:-1

block1141706 [novel_lenNOK_cloningOK_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	0.67/0.68	18/19/0.00	0.2	0.5	13	0	7	0	32	-3	3arm_loop	1	nd	0.39	3	13	7	na	na

		reads	miRBase family seed
seed	--------------------------------------------------GACAGUG-------------------------------------------	10	novel
seed	---------------------------------------------------ACAGUGC------------------------------------------	3	novel
		len	cloning frequencies
			T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1
	-------------------------------------------------GGACAGTGCCAGGTGGGA---------------------------------	18	1	1	1	-	-	2	1
	-------------------------------------------------GGACAGTGCCAGGTGGGAG--------------------------------	19	1	1	-	1	1	-	-
	--------------------------------------------------GACAGTGCCAGGTGGGAG--------------------------------	18	2	-	-	-	-	1	-
rat	ttccaggtgggcagtgccaggtgggcagtgccaggtggacagtgcaggaGGACAGTGCCAGGTGGGAGtgccaggcgggcagtgccaggtggttctggag
	****************************************************************************************************
rat	.((((((..((((.((((..((.((((...(((..(((.((.((........)).)))))..)))...))))..)).)))).)))).......)))))).	0.710 -41.40

rat

chromosome:2:43173531:43173630:-1

intergenic ## {Repeats: trf 25 44 0 class=trf}

block1516677 [novel_lenNOK_cloningOK_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	0.45/0.50	18/20/0.04	0.0	0.0	19	0	6	0	39	-4	3arm_loop	1	59	0.39	3	27	6	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------GGAAUGA-------------------------------------------------	27	novel
		len	cloning frequencies
			T1S1	T2S1	T3S2	T4S1	T4S2	T5S1
	-----------------------------------------------------------TGGAATGAAGGTGGTGCT---------------------------------------	18	2	2	1	6	13	1
	-----------------------------------------------------------TGGAATGAAGGTGGTGCTT--------------------------------------	19	-	-	-	-	1	-
	-----------------------------------------------------------TGGAATGAAGGTGGTGCTTT-------------------------------------	20	-	-	-	-	1	-
rat	ggtaagtgggatttgccaaagagttggaggggataggcagaagggaccagctggtgacaTGGAATGAAGGTGGTGCTttctggtgtccctccattggtcatatgacccaagtgtcc
	********************************************************************************************************************
	>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000029876 ENSRNOG00000021870 Slco4a1
rat	((((..((((...((((((.....((((((((.....(((((((.((((.((.((........))..)).)))).)))))))...)))))))))))).)).....))))..)).))	0.780 -43.00

rat

chromosome:3:169529403:169529518:1

Same_strand|Intronic_coding|ENSRNOT00000029876|ENSRNOG00000021870 ## ENSRNOG00000021870|protein_coding|Slco4a1|Solute carrier organic anion transporter family member 4A1 (Solute carrier family 21 member 12) (Sodium-independent organic anion transporter E) (Organic anion-transporting polypeptide E) (OATP-E). [Source:UniProtKB/Swiss-Prot;Acc:Q99N01]

block1568311 [novel_lenNOK_cloningOK_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	0.63/0.63	19/19/0.00	0.0	0.0	23	0	2	0	22	-2	5arm_loop	1	nd	0.32	3	23	2	na	na

		reads	miRBase family seed
seed	-----------------------GCUAGCC---------------------------------------------------------	23	novel
		len	cloning frequencies
			T1S1	T1S2
	----------------------AGCTAGCCAGCCAGCCTGT----------------------------------------------	19	11	12
rat	actcagttgggggagggacaacAGCTAGCCAGCCAGCCTGTtctagggctgtggcaggctctgttctgttccactcccgggtgagtg
	***************************************************************************************
rat	(((((.(((((((.((((((((((..((((.((((((((......)))))..))).))))))))..)))))).))))))).))))).	1.000 -48.20

rat

chromosome:4:105862444:105862530:-1

intergenic

block1574531 [novel_lenNOK_cloningOK_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	0.61/0.63	18/19/0.00	0.0	0.0	9	0	4	0	16	-4	3arm_loop	1	nd	0.39	3	13	4	na	na

		reads	miRBase family seed
seed	-----------------------------------CCCUGAG--------------------------	13	miR-125a/125b/351
		len	cloning frequencies
			T1S1	T1S2	T4S1	T5S2
	----------------------------------TCCCTGAGACCCCAAGAC----------------	18	3	6	1	1
	----------------------------------TCCCTGAGACCCCAAGACC---------------	19	1	1	-	-
rat	gttcctgtagttgaccagggccacatggggctcaTCCCTGAGACCCCAAGACctggtcattagtgacc
	********************************************************************
rat	((..(((....((((((((......(((((((((....)))).)))))...)))))))).)))..)).	1.000 -30.60

rat

chromosome:4:118466322:118466389:-1

intergenic

block1762233 [novel_lenNOK_cloningOK_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	0.006	no	no	0.44/0.47	18/19/0.00	0.0	0.0	19	0	2	0	11	-4	3arm_loop	1	nd	0.33	3	23	2	na	na

		reads	miRBase family seed
seed	-----------------------------GGAGUGU---------------------	23	miR-122
		len	cloning frequencies
			T2S1	T2S2
	----------------------------TGGAGTGTGAGTATGACA-----------	18	19	3
	----------------------------TGGAGTGTGAGTATGACAG----------	19	-	1
rat	gaatgaagggtctgtctcttataggcaaTGGAGTGTGAGTATGACAggccttccttc
	*********************************************************
rat	(((.(((.((((((((.(((((..((......)))))))...))))))))))).)))	1.000 -19.20

rat

chromosome:5:104866020:104866076:-1

intergenic

block2191908 [novel_lenNOK_cloningOK_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	0.006	no	no	0.53/0.56	18/19/0.00	0.0	0.2	30	0	10	0	8	-3	5arm_loop	1	nd	0.33	3	46	10	na	na

		reads	miRBase family seed
seed	---------GGUAAGG-----------------------------------------	46	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	--------CGGTAAGGCTTTGGGGAA-------------------------------	18	8	4	1	2	7	1	1	4	2	2
	--------CGGTAAGGCTTTGGGGAAA------------------------------	19	4	1	1	1	1	2	3	-	1	-
rat	gctcctcaCGGTAAGGCTTTGGGGAAAtcttgccccactgcctcattggcttagagc
	*********************************************************
	-------------------------------------------------------------------	ENSRNOT00000044331 ENSRNOG00000005758 Btbd11
rat	((((....((((.((((..(((((........)))))..)))).)))).....))))	1.000 -23.30

rat

chromosome:7:20317574:20317630:1

block2230710 [novel_lenNOK_cloningOK_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	0.007	no	no	0.50/0.50	18/18/0.00	0.0	0.0	10	0	3	0	8	-4	3arm_loop	1	nd	0.39	3	11	3	na	na

		reads	miRBase family seed
seed	--------------------------UAGUUGU------------------	11	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1
	-------------------------CTAGTTGTGGTGTGGAGT--------	18	6	4	1
rat	ttagttctaaaacataatgacatagCTAGTTGTGGTGTGGAGTggggctag
	***************************************************
rat	.(((..(((...((((....(((((....))))).))))...)))..))).	1.000 -14.70

rat

chromosome:7:80870051:80870101:1

intergenic

block2407864 [novel_lenNOK_cloningOK_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	0.004	no	no	0.20/0.22	18/20/0.06	0.0	0.0	9	0	7	0	44	-2	3arm_loop	2	nd	0.33	3	16	7	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------UUUCUUA------------------------------------------------------	16	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T3S2	T4S2	T5S2
	--------------------------------------------------------TTTTCTTAAGAGGAAAAT--------------------------------------------	18	6	1	1	1	3	1	1
	--------------------------------------------------------TTTTCTTAAGAGGAAAATA-------------------------------------------	19	1	-	-	-	-	-	-
	--------------------------------------------------------TTTTCTTAAGAGGAAAATAA------------------------------------------	20	1	-	-	-	-	-	-
rat	ggggagggggagagaggacggcatgaaaagcaccttgtacatctgtctgtgaaataTTTTCTTAAGAGGAAAATaagggacatgttgtcatgtctgttccctcatgtcactctctcca
	**********************************************************************************************************************
rat	((((((((((.(((.(((((((((((..((((((((((...(((.(((..(((.....)))...))))))..))))))....)))).))))).)))))).)))...)).)))))))).	0.490 -40.90

rat

chromosome:8:57675649:57675766:1

intergenic

novel_lenNOK_cloningOK_multiarm (11 loci)

block996086 [novel_lenNOK_cloningOK_multiarm]

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	0.493	no	no	0.38/0.43	18/25/0.37	0.3 0.0	1.1 0.0	15 2	0 0	3 1	0 0	8 19	8 -5	5arm 5arm_loop_3arm	1 1	nd nd	0.28 0.35	3 4	27	3	na	na

		reads	miRBase family seed
seed	---------UAGACGU--------------------------------------------------------------	14	novel
seed	----------AGACGUU-------------------------------------------------------------	11	novel
seed	--------------------AGUGACA---------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T2S1	T5S1
	--------TTAGACGTTTGTAGTGAC----------------------------------------------------	18	-	1	7
	---------TAGACGTTTGTAGTGACA---------------------------------------------------	18	1	-	4
	--------TTAGACGTTTGTAGTGACAGT-------------------------------------------------	21	-	-	4
	---------TAGACGTTTGTAGTGACAG--------------------------------------------------	19	1	-	2
	-------------------TAGTGACAGTAGTGCCTTGATTG------------------------------------	23	-	-	2
	---------TAGACGTTTGTAGTGACAGT-------------------------------------------------	20	-	-	1
	---------TAGACGTTTGTAGTGACAGTAGTG---------------------------------------------	24	1	-	-
	--------TTAGACGTTTGTAGTGACAGTAG-----------------------------------------------	23	-	-	1
	--------TTAGACGTTTGTAGTGACAGTAGTG---------------------------------------------	25	1	-	-
	---------TAGACGTTTGTAGTGACAGTAGT----------------------------------------------	23	-	-	1
rat	gccaacgtTTAGACGTTTGTAGTGACAGTagtgccttgattggggtgactctcacttgtattttgatttctctgtggc
	******************************************************************************
rat	((((......(((.(((...(((((.(((...(((((....))))).))).)))))........))).)))...))))	0.600 -16.90