miR-Intess: classification

other hairpins

novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH (15 loci)

block657754 [novel_shortStem_loopOverlap_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	0.004	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	0	-2	5arm_loop	1	nd	0.48	4	1	1	na	na

		reads	miRBase family seed
seed	-ACUCUCU-------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	TACTCTCTTAACTCTGACCTC------------------------	21	1
rat	TACTCTCTTAACTCTGACCTCgtctatggtcctgtttcttgagtg
	*********************************************
rat	(((((....(((...((((........))))..)))....)))))	1.000 -11.40

rat

chromosome:17:40999064:40999108:1

intergenic

block879194 [novel_shortStem_loopOverlap_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	0.009	no	no	0.45/0.45	20/20/1.00	0.0	0.0	2	0	1	0	4	-3	5arm_loop	1	nd	0.35	4	2	1	na	na

		reads	miRBase family seed
seed	-----GGCUCCU------------------------------------------	2	novel
		len	cloning frequencies
			T5S1
	----AGGCTCCTAGTTTATCACAC------------------------------	20	2
rat	tgggAGGCTCCTAGTTTATCACACtcttgagtaactgggagcagaaagcctcaa
	******************************************************
rat	.(((..((((((((((..(((......)))..))))))))))......)))...	0.990 -19.40

rat

chromosome:1:124843484:124843537:-1

intergenic

block1061842 [novel_shortStem_loopOverlap_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	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	1	-2	5arm_loop	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	--CACACAC----------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-GCACACACACATACACACCCT---------------------------	21	1
rat	tGCACACACACATACACACCCTagggtaagcatacatgtgtgtttgtac
	*************************************************
rat	((((.((((((((....(((....)))........)))))))).)))).	1.000 -14.60

rat

chromosome:20:6301267:6301315:-1

intergenic ## {Repeats: dust 6301294 6301313 0 class=dust}

block1070901 [novel_shortStem_loopOverlap_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	0.001	no	no	0.43/0.43	23/23/1.00	0.0	0.0	1	0	1	0	2	-3	3arm_loop	1	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------UCAGUUU-----------------	1	novel
		len	cloning frequencies
			T1S1
	------------------------GTCAGTTTTGAATTTGCTCTCCC--	23	1
rat	tgggggaagcatagcaaaactataGTCAGTTTTGAATTTGCTCTCCCta
	*************************************************
rat	(((((..((((...(((((((......)))))))....))))..)))))	1.000 -20.30

rat

chromosome:20:19668052:19668100:-1

intergenic

block1102149 [novel_shortStem_loopOverlap_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	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	4	-4	5arm_loop_3arm	1	nd	0.43	4	1	1	na	na

		reads	miRBase family seed
seed	-----GUGAACC-----------------------------------	1	novel
		len	cloning frequencies
			T5S1
	----TGTGAACCTAGGACAGACCAG----------------------	21	1
rat	gtccTGTGAACCTAGGACAGACCAGtttatttccttggaaacaggac
	***********************************************
rat	(((((((...((.((((.(((....)))...)))).))..)))))))	0.980 -16.10

rat

chromosome:20:17939095:17939141:1

intergenic

block2119665 [novel_shortStem_loopOverlap_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	0.007	no	no	0.41/0.41	22/22/1.00	0.0	0.0	1	0	1	0	2	-3	5arm_loop	1	nd	0.36	4	1	1	na	na

		reads	miRBase family seed
seed	---GCUAUUG--------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	--TGCTATTGTCTAGGAGTTGTGT------------------------	22	1
rat	aaTGCTATTGTCTAGGAGTTGTGTttatttcctgaagaaattagcatt
	************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000045130 ENSRNOG00000004185 Mon2
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000005654 ENSRNOG00000004185 Mon2
rat	(((((((...((((((((.((....)).)))))..)))...)))))))	1.000 -12.70

rat

chromosome:7:62822609:62822656:-1

block2563773 [novel_shortStem_loopOverlap_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	0.008	no	no	0.35/0.35	20/20/1.00	0.0	0.0	1	0	1	0	1	-4	5arm_loop_3arm	1	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	--GGGAAUU-------------------------------	1	novel
		len	cloning frequencies
			T2S2
	-TGGGAATTAAAAGGGGAAAA-------------------	20	1
rat	aTGGGAATTAAAAGGGGAAAAccctgctttgaagccccgt
	****************************************
rat	..(((..(((((.((((....))))..)))))..)))...	0.960 -12.90

rat

chromosome:9:6324435:6324474:1

intergenic

block3007251 [novel_shortStem_loopOverlap_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	0.006	no	no	0.43/0.45	22/23/1.00	0.0	0.5	2	0	1	0	1	-2	3arm_loop	1	nd	0.39	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------GCAGUGU----------------	2	novel
		len	cloning frequencies
			T3S1
	--------------------AGCAGTGTACAAAGGAGAGCAAT-	23	1
	--------------------AGCAGTGTACAAAGGAGAGCAA--	22	1
rat	cattgacctgagacactgtgAGCAGTGTACAAAGGAGAGCAATg
	********************************************
rat	(((((.(((...((((((....))))))....)))....)))))	1.000 -14.80

rat

chromosome:X:81508831:81508874:1

intergenic

block648461 [novel_shortStem_loopOverlap_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	0.010	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	2	-3	5arm_loop	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	---ACCAGCA------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--TACCAGCATTCAGACATAGAA-----------------------------	21	1
rat	tgTACCAGCATTCAGACATAGAAatgaatgtatatgtgtgtttgcggtcaca
	****************************************************
rat	.(((((.(((..((.(((((............))))).))..)))))).)).	1.000 -14.60

rat

chromosome:17:20759821:20759872:1

intergenic

miRNAunknown_Multihit_randfoldOK (14 loci)

block140171 (miRNA) [miRNAunknown_Multihit_randfoldOK]

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
Ensembl miRNA	0.001	no	no	0.48/0.50	20/21/1.00	0.0	0.5	2	0	2	0	32	8	5arm	358	nd	0.14	2	2	2	na	na

		reads	miRBase family seed
seed	---------------------------------GUGAGUG------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T3S1	T5S2
	--------------------------------TGTGAGTGTGAGTGTGTGAG------------------------------------------------------------------	20	1	-
	--------------------------------TGTGAGTGTGAGTGTGTGAGT-----------------------------------------------------------------	21	-	1
rat	aatgtgtgtgtgagtgtgagtgagtgtgggtgTGTGAGTGTGAGTGTGTGAGTgtgtgtatctgtgtgtgcatgctcacacacacatgcacacacacacacgcatgtgcacacacgtt
	**********************************************************************************************************************
	.....................>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>.................	ENSRNOT00000062986 ENSRNOG00000041233
rat	(((((((((((..((((......(((((.(((((((.((((..(((((((((((((..(((....)))..))))))))))))))))).))))))).)))))))))..)))))))))))	1.000 -63.50

rat

chromosome:11:84902674:84902791:-1

Same_strand|Exonic_non-coding|ENSRNOT00000062986|ENSRNOG00000041233 ## ENSRNOG00000041233|miRNA|| ## {Repeats: trf 4 25 0 class=trf,(CA)n 18 39 -1 class=Simple_repeat,(CA)n 1 179 -1 class=Simple_repeat,dust 84902739 84902760 0 class=dust,trf 18 39 0 class=trf}

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Page 31204

miR-Intess™

block657754 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block879194 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block1061842 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block1070901 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block1102149 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block2119665 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block2563773 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block3007251 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block648461 [novel_shortStem_loopOverlap_randfoldOK_nonpairedHIGH_bulgeHIGH]

block140171 (miRNA) [miRNAunknown_Multihit_randfoldOK]