miR-Intess: classification

other hairpins

novel_lenNOK_cloningOK_multiarm_DicerNOK_loopOverlap_bulgeHIGH (12 loci)

sblock880 [novel_lenNOK_cloningOK_multiarm_DicerNOK_loopOverlap_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	0.018	no	no	0.63/0.78	18/20/0.35	0.0 0.2	0.0 1.1	1 16	0 0	1 8	0 0	10 13	1 -2	5arm 3arm	1 1	nd nd	0.21 0.21	4 4	17	8	-3	-1

		reads	miRBase family seed
seed	--------------------------------------UGGGCGG-------------------------	13	novel
seed	---------------------------------------GGGCGGG------------------------	2	novel
seed	-------------------------------------CUGGGCG--------------------------	1	novel
seed	-----------CCGCUUC----------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T5S1	T5S2
	-------------------------------------CTGGGCGGGATGGGAGGTGG-------------	20	2	2	-	-	1	-	-	1
	-------------------------------------CTGGGCGGGATGGGAGGT---------------	18	-	-	-	2	-	1	1	-
	-------------------------------------CTGGGCGGGATGGGAGGTG--------------	19	1	1	-	-	-	-	1	-
	--------------------------------------TGGGCGGGATGGGAGGTG--------------	18	-	-	-	-	-	-	-	2
	----------GCCGCTTCCCGTAGAATCC-----------------------------------------	19	-	1	-	-	-	-	-	-
	------------------------------------CCTGGGCGGGATGGGAGG----------------	18	-	-	1	-	-	-	-	-
rat	ggcgtaacggGCCGCTTCCCGTAGAATCCactaaaaCCTGGGCGGGATGGGAGGTGGaaaaatacaacca
	**********************************************************************
	--------------------------------------------------------------------------------	ENSRNOT00000025773 ENSRNOG00000019045 RGD1306538
	--------------------------------------------------------------------------------	ENSRNOT00000048337 ENSRNOG00000019045 RGD1306538
rat	((.(((.....(((((((((((....((((........))))....))))))))))).....)))..)).	0.980 -24.70

rat

chromosome:1:187060801:187060870:-1

Opposite_strand|Intronic_coding|ENSRNOT00000048337|ENSRNOG00000019045 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000025732|ENSRNOG00000019045 ## ENSRNOG00000019045|protein_coding|RGD1306538|Protein orai-3 (Transmembrane protein 142C). [Source:UniProtKB/Swiss-Prot;Acc:Q6AXR8] ## {SimpF: oe = 0.83 0 CpG}

novel_lenNOK_cloningOK_shortStem_randfoldOK_nonpairedHIGH (12 loci)

block432945 [novel_lenNOK_cloningOK_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	0.37/0.39	18/19/0.00	0.0	0.0	18	0	7	0	1	37	3arm	1	nd	0.32	3	21	7	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------------CUGUCUG------------	21	novel
		len	cloning frequencies
			T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T5S2
	----------------------------------------------------------------------------------------------ACTGTCTGAATCATGATGT-	19	3	6	5	2	1	1	2
	----------------------------------------------------------------------------------------------ACTGTCTGAATCATGATG--	18	-	-	1	-	-	-	-
rat	tacaatgaaggacatgtatgtgtccccaggcacatgtgcatgtgtgtgcacatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtaggtttgtgACTGTCTGAATCATGATGTg
	******************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000009393 ENSRNOG00000007167 Fhit
rat	((((((((.(((((..((((..((..((.(((((((..((((..((..(((((....)))))..))..))))..))))))).))..))..))))..)))))...))))..))))	0.920 -40.10

rat

chromosome:15:17167972:17168085:-1

Opposite_strand|Intronic_coding|ENSRNOT00000009393|ENSRNOG00000007167 ## ENSRNOG00000007167|protein_coding|Fhit|Bis(5'-adenosyl)-triphosphatase (EC 3.6.1.29) (Diadenosine 5',5'''- P1,P3-triphosphate hydrolase) (Dinucleosidetriphosphatase) (AP3A hydrolase) (AP3Aase) (Fragile histidine triad protein). [Source:UniProtKB/Swiss-Prot;Acc:Q9JIX3]

block556398 [novel_lenNOK_cloningOK_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	0.007	no	no	0.28/0.32	18/19/0.00	0.0	0.0	27	0	2	0	0	33	5arm	1	nd	0.33	3	28	2	na	na

		reads	miRBase family seed
seed	-GGAAUUU---------------------------------------------------------------------------------------------------------	28	novel
		len	cloning frequencies
			T4S1	T4S2
	TGGAATTTAAAGTTTTGG-----------------------------------------------------------------------------------------------	18	11	16
	TGGAATTTAAAGTTTTGGC----------------------------------------------------------------------------------------------	19	-	1
rat	TGGAATTTAAAGTTTTGGccaaaaaaaattaccagttccacatagcttgcataatcttgcataatgggtggtgggcctgggaagttgatgttttgaaaactgtatgatttcac
	*****************************************************************************************************************
rat	(((((((...((((((...(((((..((((.((((..((((...(((((((......)))).....))).))))..))))..))))....)))))))))))....))))))).	1.000 -31.20

rat

chromosome:16:3728550:3728662:1

intergenic

block788335 [novel_lenNOK_cloningOK_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	0.007	no	no	0.56/0.58	18/19/0.00	0.0	0.3	16	0	6	0	2	15	5arm	1	nd	0.32	3	16	6	na	na

		reads	miRBase family seed
seed	---GUGCCUG----------------------------------------------------------------------	16	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T3S2	T4S1	T5S1
	--AGTGCCTGCCATCACTGA------------------------------------------------------------	18	2	3	3	1	1	1
	--AGTGCCTGCCATCACTGAC-----------------------------------------------------------	19	2	-	1	2	-	-
rat	acAGTGCCTGCCATCACTGACccacacacaagggagccactttccttctcagtggtgggcaatgtgacagctaatattga
	********************************************************************************
rat	.(((((...((..((((((.(((((.(((..(((((........)))))..))))))))))..))))..))...))))).	1.000 -26.70

rat

chromosome:19:50694016:50694095:-1

intergenic

block944791 [novel_lenNOK_cloningOK_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	0.004	no	no	0.53/0.56	18/19/0.00	0.0	0.0	23	0	6	0	0	9	3arm	1	nd	0.35	3	30	6	na	na

		reads	miRBase family seed
seed	-------------------------------------------------UCCCUCA----------	27	novel
seed	------------------------------------------------CUCCCUC-----------	2	miR-343
seed	-----------------------------------------------ACUCCCU------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T3S2	T5S2
	------------------------------------------------CTCCCTCACACTTCCAGT	18	2	5	1	1	13	5
	-----------------------------------------------ACTCCCTCACACTTCCAGT	19	1	-	-	-	1	-
	----------------------------------------------GACTCCCTCACACTTCCA--	18	-	-	1	-	-	-
rat	ctgagagtgtgcgagcctgagacaaccccagctatttaatctcatggaCTCCCTCACACTTCCAGT
	******************************************************************
rat	(((..((((((.((((((((((.................))))).)).)))...))))))..))).	1.000 -21.53

rat

chromosome:1:14726059:14726124:1

intergenic

block1271892 [novel_lenNOK_cloningOK_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	0.004	no	no	0.50/0.53	18/19/0.00	0.0	0.1	14	0	7	0	3	2	3arm	1	nd	0.32	3	18	7	na	na

		reads	miRBase family seed
seed	----------------------------------------GUGCAAA--------------	18	miR-19a/19b
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S1	T3S2	T5S1	T5S2
	---------------------------------------TGTGCAAATCCATGCCTGC---	19	1	-	1	5	3	2	2
	---------------------------------------TGTGCAAATCCATGCCTG----	18	-	2	1	-	-	-	1
rat	gtgcatgggatggagaatggctattacagaggcgagagcTGTGCAAATCCATGCCTGCaca
	*************************************************************
rat	(((((.((.(((((.....((.........(((....)))..))...))))).))))))).	0.920 -24.20

rat

chromosome:2:85533987:85534047:1

intergenic

block1286719 [novel_lenNOK_cloningOK_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	0.010	no	no	0.32/0.33	18/19/0.00	0.0	0.0	14	0	7	0	1	26	3arm	2	nd	0.39	2	23	7	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------------------------------UGUAAUG-----------	22	novel
seed	------------------------------------------------------------------------------UUGUAAU------------	1	novel
		len	cloning frequencies
			T1S2	T2S1	T2S2	T4S1	T4S2	T5S1	T5S2
	------------------------------------------------------------------------------TTGTAATGCTTTGGGAAA-	18	1	2	2	1	10	2	4
	-----------------------------------------------------------------------------TTTGTAATGCTTTGGGAAA-	19	1	-	-	-	-	-	-
rat	ttttacagatcagaagggctcgcaggaacagtcagcattagagttaaagaagaactctagtcactgctgttcatttgtTTGTAATGCTTTGGGAAAa
	*************************************************************************************************
	-----------------------------------------------------------------------------------------------------------	ENSRNOT00000021453 ENSRNOG00000015816 Bbs7
rat	(((..((((.((.....((..(((.((((((.(((.(((((((((.......)))))))))..)))))))))...)))..))..)).))))..))).	0.990 -26.90

rat

chromosome:2:123093509:123093605:1

block1351624 [novel_lenNOK_cloningOK_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	0.009	no	no	0.44/0.47	18/19/0.00	0.0	0.0	12	0	5	0	4	1	5arm	1	nd	0.32	3	20	5	na	na

		reads	miRBase family seed
seed	-----CAAGGUU-------------------------------------	20	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T5S1	T5S2
	----CCAAGGTTAATCCAAGGTC--------------------------	19	12	2	-	-	2
	----CCAAGGTTAATCCAAGGT---------------------------	18	-	1	1	2	-
rat	tagcCCAAGGTTAATCCAAGGTCagagaatgagctatggagctgggctg
	*************************************************
	-----------------------------------------------------------	ENSRNOT00000017997 ENSRNOG00000039777 RGD1565673_predicted
	-----------------------------------------------------------	ENSRNOT00000061029 ENSRNOG00000039777 RGD1565673_predicted
rat	((((((..(((...((((((.(((.....))).)).)))))))))))))	1.000 -17.70

rat

chromosome:3:8081392:8081440:-1

block1508437 [novel_lenNOK_cloningOK_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	0.008	no	no	0.42/0.44	18/19/0.00	0.0	0.4	10	0	7	0	2	26	3arm	1	nd	0.37	3	10	7	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------UCACAUU-------------	10	miR-23a/23b
		len	cloning frequencies
			T1S1	T2S1	T2S2	T3S2	T4S1	T4S2	T5S1
	-------------------------------------------------------------------------------ATCACATTACCAGGGATC---	18	-	-	1	1	1	-	3
	-------------------------------------------------------------------------------ATCACATTACCAGGGATCA--	19	2	1	-	-	-	1	-
rat	tctgccctcaatgtcttggttctgctagcctaggtgaactcagccattacaaagcattcacctcagtaagctcacaactATCACATTACCAGGGATCAgg
	****************************************************************************************************
rat	.(((((((.(((((..(((((..(((.((..(((((((....((.........)).)))))))..)).)))....)))))..)))))...))))..))).	1.000 -26.90

rat

chromosome:3:155753485:155753584:1

intergenic

block1680650 [novel_lenNOK_cloningOK_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	0.67/0.68	18/19/0.00	0.0	0.0	14	0	7	0	0	21	5arm	1	nd	0.33	2	18	7	na	na

		reads	miRBase family seed
seed	-CAUGGGU------------------------------------------------------------------------	18	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T3S2	T4S1	T4S2	T5S2
	GCATGGGTGGGGAAGTGG--------------------------------------------------------------	18	3	1	1	5	4	1	2
	GCATGGGTGGGGAAGTGGG-------------------------------------------------------------	19	-	-	-	1	-	-	-
rat	GCATGGGTGGGGAAGTGGgacagaaaggagatggagcttaaagagctttgtggataggtcccttgttttctgggctgtgt
	********************************************************************************
rat	((((((..((..((..(((((.........((..(((((...)))))..))......)))))...))..))...))))))	1.000 -21.36