miR-Intess: classification

other hairpins

novel_Multihit_shortStem_randfoldOK_nonpairedHIGH (23 loci)

block211108 [novel_Multihit_shortStem_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	0	28	5arm	64	nd	0.32	2	1	1	na	na

		reads	miRBase family seed
seed	-CCUGAGC------------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	TCCTGAGCAGCTCCTGAACTCC----------------------------------------------------------------------------------------------	22	1
rat	TCCTGAGCAGCTCCTGAACTCCtgagcagctcctgaactcctgagcagctcctgagcagctcctgacctcctgagctgctcctgagcaactcctgaccttctgagccgctcctgac
	********************************************************************************************************************
rat	((..((((.((((..((((((..(((((((((..((..((..((((.(((....))).))))..))..))..)))))))))..)))............))).)))).))))..)).	0.440 -43.50

rat

chromosome:12:8619562:8619677:1

intergenic ## {Repeats: trf 8043 8065 0 class=trf,trf 8053 8075 0 class=trf,dust 8619527 8619549 0 class=dust}

block1286212 [novel_Multihit_shortStem_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	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	1	10	5arm	157	nd	0.35	3	1	1	na	na

		reads	miRBase family seed
seed	--CUCUGAC-----------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1
	-GCTCTGACTCTATCCCTAGC-----------------------------------------------------------	20	1
rat	aGCTCTGACTCTATCCCTAGCacgtgcagggctctgactatatccctagcacgtgcagggctctgactctatccgtagca
	********************************************************************************
	------------------------------------------------------------------------------------------	ENSRNOT00000017711 ENSRNOG00000012734 NP_001101138.1
rat	.(((..((.((...((((.((((((((((((............)))).))))))))))))....)).)).......))).	0.950 -29.20

rat

chromosome:2:122361152:122361231:1

Opposite_strand|Intronic_coding|ENSRNOT00000017711|ENSRNOG00000012734 ## ENSRNOG00000012734|protein_coding|NP_001101138.1|DCN1, defective in cullin neddylation 1, domain containing 1 [Source:RefSeq_peptide;Acc:NP_001101138] ## {Repeats: trf 6517 6537 0 class=trf}

block1475592 [novel_Multihit_shortStem_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	0.55/0.55	22/22/1.00	0.0	0.0	3	0	1	0	4	28	5arm	21	nd	0.32	3	3	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------CACCCAG-------------------------------------------	1	novel
seed	-----CACCCAG---------------------------------------------------------------------------------------------------------	1	novel
seed	------------------------------------CACCCAG--------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	-----------------------------------ACACCCAGTGCTGTGTCCTATG------------------------------------------------------------	22	1
	----ACACCCAGTGCTGTGTCCTATG-------------------------------------------------------------------------------------------	22	1
	------------------------------------------------------------------ACACCCAGTGCTGTGTCCTATG-----------------------------	22	1
rat	caggACACCCAGTGCTGTGTCCTATGgtagacaggACACCCAGTGCTGTGTCCTATGgtagacaggACACCCAGTGCTGTGTCCTATGgtaggcaggacacccagtgctgggtcctg
	*********************************************************************************************************************
rat	(((((..(((((..(((((((((...((..(((((((((..((..(((((((((.........)))))))..))..)))))))))...))..)))))))))..))..))))))))))	0.970 -57.00

rat

chromosome:3:89188143:89188259:1

intergenic ## {Repeats: trf 778 800 0 class=trf}

block1475600 [novel_Multihit_shortStem_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	0.55/0.55	22/22/1.00	0.0	0.0	1	0	1	0	3	28	5arm	21	nd	0.32	3	1	1	na	na

		reads	miRBase family seed
seed	----CACCCAG---------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	---ACACCCAGTGCTGTGTCCTATG-------------------------------------------------------------------------------------------	22	1
rat	aggACACCCAGTGCTGTGTCCTATGgtagacaagacatccagtgctgtgtcctatggtaggcaggacacccagtgctgggtcctctggtaggcaggacacccagtgctgtgtccta
	********************************************************************************************************************
rat	(((((((..((..(((((((((...((..((.(((.((((((..(((((((((.........)))))))..))..))))))..))).))..)))))))))..))..))))))))).	0.960 -53.30

rat

chromosome:3:89188825:89188940:1

intergenic ## {Repeats: trf 4 26 0 class=trf}

block1611419 [novel_Multihit_shortStem_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	0.60/0.60	20/20/1.00	0.0	0.0	2	0	1	0	4	30	5arm	32	nd	0.40	2	2	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------------------GAGCCGG-------------------------	1	novel
seed	-----GAGCCGG---------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	------------------------------------------------------------------------------------TGAGCCGGGAACACTGTGAG-------------	20	1
	----TGAGCCGGGAACACTGTGAG---------------------------------------------------------------------------------------------	20	1
rat	actgTGAGCCGGGAACACTGTGAGctgggaacacagtgagctgagaacattgtgagctgagaacactgtgagctgagaacactgTGAGCCGGGAACACTGTGAGctgggaacacagt
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000021306 ENSRNOG00000015910 Ifltd1_predicted
rat	((((((..((.((..(((.(((..((.((..(((((((..((.((..(((.(((.........))).)))..)).))..)))))))..)).))..))).)))..)).))..))))))	1.000 -49.40

rat

chromosome:4:183060804:183060920:-1

Same_strand|Intronic_coding|ENSRNOT00000021306|ENSRNOG00000015910 ## ENSRNOG00000015910|protein_coding|Ifltd1_predicted| ## {Repeats: trf 4065 4085 0 class=trf}

novel_lenNOK_Multihit_5varHIGH_loopOverlap_nonpairedHIGH (23 loci)

block400746 [novel_lenNOK_Multihit_5varHIGH_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	0.367	no	no	0.62/0.67	18/24/0.50	3.5	0.5	2	0	2	0	29	-20	3arm_loop	17	nd	0.44	3	2	2	na	na

		reads	miRBase family seed
seed	--------------------------------------AGCCCCU---------------------------------------	1	novel
seed	-------------------------------UGCUCUG----------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T4S1
	-------------------------------------GAGCCCCTACTTCCCTGC-----------------------------	18	1	-
	------------------------------CTGCTCTGAGCCCCTACTTCCCTG------------------------------	24	-	1
rat	gcactctctggggaagggacagtggataagCTGCTCTGAGCCCCTACTTCCCTGCtgcctccctttgatctcgactgtggtgca
	************************************************************************************
rat	(((((...((((((((((((((((((..((..((.....))..))...)))..))))..)))))))...)))).....))))).	0.590 -24.60

rat

chromosome:14:49772929:49773012:1

intergenic

block525875 [novel_lenNOK_Multihit_5varHIGH_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	0.105	no	no	0.61/0.64	23/25/0.33	1.7	1.0	3	0	1	0	18	-5	5arm_loop_3arm	14	nd	0.36	3	3	1	na	na

		reads	miRBase family seed
seed	-------------------AGCCAGA----------------------------------------------------------	2	novel
seed	------------------------GAGCCAG-----------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	------------------GAGCCAGAGCCAGCTATGTCCACCC-----------------------------------------	25	2
	-----------------------AGAGCCAGCTATGTCCACCCACC--------------------------------------	23	1
rat	gactgcctggcctatgttGAGCCAGAGCCAGCTATGTCCACCCACCgtgccgacagtctggctgctcttgagcatgagctgtct
	************************************************************************************
rat	(((.....(((.((((((((((...((((((...(((((((.....)))..))))..))))))))))...)))))).)))))).	0.650 -28.10

rat

chromosome:16:20761270:20761353:-1

intergenic

block526271 [novel_lenNOK_Multihit_5varHIGH_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	0.105	no	no	0.61/0.64	23/25/0.33	1.7	1.0	3	0	1	0	18	-5	5arm_loop_3arm	14	nd	0.36	3	3	1	na	na

		reads	miRBase family seed
seed	-------------------AGCCAGA----------------------------------------------------------	2	novel
seed	------------------------GAGCCAG-----------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	------------------GAGCCAGAGCCAGCTATGTCCACCC-----------------------------------------	25	2
	-----------------------AGAGCCAGCTATGTCCACCCACC--------------------------------------	23	1
rat	gactgcctggcctatgttGAGCCAGAGCCAGCTATGTCCACCCACCgtgccgacagtctggctgctcttgagcatgagctgtct
	************************************************************************************
rat	(((.....(((.((((((((((...((((((...(((((((.....)))..))))..))))))))))...)))))).)))))).	0.650 -28.10

rat

chromosome:16:21508870:21508953:-1

intergenic

block552049 [novel_lenNOK_Multihit_5varHIGH_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	0.627	no	no	0.55/0.58	19/22/0.50	1.5	0.0	2	0	2	0	6	-3	3arm	129	nd	0.32	3	2	2	na	na

		reads	miRBase family seed
seed	---------------------------------------ACGGCAC--------------------	1	novel
seed	------------------------------------------GCACAGU-----------------	1	novel
		len	cloning frequencies
			T3S1	T4S2
	-----------------------------------------GGCACAGTCAAGGCTGAGA------	19	1	-
	--------------------------------------AACGGCACAGTCAAGGCTGAGA------	22	-	1
rat	tccacatgttccagtatggctctacccacagcaagttcAACGGCACAGTCAAGGCTGAGAatggga
	******************************************************************
rat	(((....((((((((.(((((...((...............))...)))))..)))).)))).)))	0.890 -12.86

rat

chromosome:16:83212464:83212529:-1

intergenic

block564674 [novel_lenNOK_Multihit_5varHIGH_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	0.073	no	no	0.61/0.64	23/25/0.33	1.7	1.0	3	0	1	0	10	-5	5arm_loop_3arm	14	nd	0.36	3	3	1	na	na

		reads	miRBase family seed
seed	-----------AGCCAGA------------------------------------------------------	2	novel
seed	----------------GAGCCAG-------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----------GAGCCAGAGCCAGCTATGTCCACCC-------------------------------------	25	2
	---------------AGAGCCAGCTATGTCCACCCACC----------------------------------	23	1
rat	ggcctatgttGAGCCAGAGCCAGCTATGTCCACCCACCgtgccgacagtctggctgctcttgaccatgagct
	************************************************************************
rat	(((.((((..((((...((((((...(((((((.....)))..))))..)))))))))).....)))).)))	0.950 -23.90