miR-Intess: classification

other hairpins

block7519 [novel_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	0.861	no	no	0.50/0.50	22/22/1.00	0.0	0.0	1	0	1	0	11	22	5arm	1	nd	0.45	4	1	1	na	na

		reads	miRBase family seed
seed	------------UUGACAU-------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-----------GTTGACATGCTTCGGAGTGGTT-----------------------------------------------------------------------------------	22	1
celegans	tttcgatggtcGTTGACATGCTTCGGAGTGGTTattcgttcaatatcaagtacggtacgccgagttcgagggttcctgagagaaattcacgattaagcagtaattccagtacggaa
	********************************************************************************************************************
celegans	.((((.(((..((((...(((((....((((...(((.((((..(((.((..(((....)))..))....)))...)))).)))..))))....))))).)))).)))...)))).	0.420 -23.60

celegans

chromosome:V:18402262:18402377:1

intergenic ## {SimpF: WRM0620dA09 1 fosmid,WRM0621cH01 1 fosmid}

block7704 [novel_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	0.065	no	no	0.50/0.50	20/20/1.00	0.0	0.0	1	0	1	0	7	7	5arm	1	nd	0.35	4	1	1	na	na

		reads	miRBase family seed
seed	--------CUGUGUA----------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-------CCTGTGTAGCACAAGTCATC----------------------------------------------	20	1
celegans	tcacggaCCTGTGTAGCACAAGTCATCaaatccttattagcctttacacttgagcaataaatgggtttatgat
	*************************************************************************
celegans	(((..(((((.(((.((.(((((....(((..((....))..)))..))))).)).)))...)))))..))).	0.990 -15.50

celegans

chromosome:X:5004298:5004370:-1

intergenic ## {SimpF: WRM0639dB06 -1 fosmid,WRM0638bA04 -1 fosmid,WRM0622bC05 -1 fosmid,WRM0635bB10 -1 fosmid,WRM0628dF04 -1 fosmid,WRM0611dC05 -1 fosmid,WRM0630aC05 -1 fosmid,WRM0632bE03 -1 fosmid}

block8107 [novel_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	0.173	no	no	0.48/0.48	21/21/1.00	0.0	0.0	1	0	1	0	5	18	5arm	2	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	------AUAAGUC------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-----AATAAGTCCAAGAGCCCGATC-----------------------------------------------------------------------	21	1
celegans	tgagcAATAAGTCCAAGAGCCCGATCaatcgatgcttgagtatcaaatgaaagacgagcatcaacttctgtggaaactcttcctggaatagttttca
	*************************************************************************************************
	<<<<<<<<<<<<<<<<<<<<.......................................................................................	Y73B3A.2 Y73B3A.2 Y73B3A.2
celegans	.(((.(((...((((((((.(((.......((((((((....((....))....))))))))........)))...))))...))))...)))))).	0.530 -20.76

celegans

chromosome:X:62211:62307:1

Opposite_strand|Boundary_non-coding|Y73B3A.2|Y73B3A.2 ## Y73B3A.2|protein_coding|Y73B3A.2|Y73B3A.2 [Source:RefSeq_peptide;Acc:NP_508077] ## {SimpF: WRM069bA07 -1 fosmid}

Additional hairpins

block8154 [novel_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	0.522	no	no	0.45/0.45	22/22/1.00	0.0	0.0	1	0	1	0	7	9	5arm	1	nd	0.36	4	1	1	na	na

		reads	miRBase family seed
seed	--------UCUUGAG-----------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-------TTCTTGAGCACAGTCAAGTTCC---------------------------------------------------	22	1
celegans	cctcaatTTCTTGAGCACAGTCAAGTTCCatgcattcctctaggttttccacattggcgcttgagtccatctaagttagg
	********************************************************************************
celegans	(((.(((((..((.((....((((((.(((((....((....)).......))).)).)))))))).))...))))))))	0.510 -12.80

celegans

chromosome:X:1397317:1397396:1

intergenic ## {SimpF: WRM0636bA02 1 fosmid,WRM0639aA01 1 fosmid,WRM064cE08 1 fosmid,WRM0635cC09 1 fosmid,WRM063cH01 1 fosmid,WRM0629aD05 1 fosmid,WRM0638dE02 1 fosmid,WRM0625bG09 1 fosmid}

block8440 [novel_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	0.088	no	no	0.55/0.55	22/22/1.00	0.0	0.0	2	0	1	0	6	1	3arm	1	nd	0.32	4	2	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------CUCGUGG--------------------	2	novel
		len	cloning frequencies
			CE1
	------------------------------------------TCTCGTGGGAGCCATTGAGTTC------	22	2
celegans	ctgagtccggggcgttggacacccatgtgagttatgagtttcTCTCGTGGGAGCCATTGAGTTCacttag
	**********************************************************************
celegans	((((((...((((..(((...((((((.(((..........))).))))))..)))....))))))))))	0.980 -23.10

celegans

chromosome:X:9191897:9191966:1

intergenic ## {SimpF: WRM0612bC02 1 fosmid,oe = 1.07 0 CpG,WRM0610cE08 1 fosmid,WRM0620dF09 1 fosmid,WRM0622bB10 1 fosmid,WRM0637cC07 1 fosmid,WRM0628dH07 1 fosmid,WRM0624aE04 1 fosmid,WRM0624bA11 1 fosmid}

novel_shortStem (23 loci)

block87 [novel_shortStem]

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	0.028	no	no	0.65/0.65	20/20/1.00	0.0	0.0	1	0	1	0	4	8	3arm	1	nd	0.25	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------GGUGUGC----------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------------------------CGGTGTGCTCGAGGGCTTGT----	20	1
celegans	gagtcgacgacgaatttgaagaaattcgccgagcaagattcaacatcttgatCGGTGTGCTCGAGGGCTTGTcact
	****************************************************************************
celegans	.(((.(((((....((((.((.....((((((.((((((.....)))))).))))))..))))))...))))))))	0.550 -22.90

celegans

chromosome:I:2150748:2150823:-1

intergenic

block230 [novel_shortStem]

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	0.409	no	no	0.32/0.32	22/22/1.00	0.0	0.0	1	0	1	0	4	7	3arm	1	nd	0.27	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------AAUUUUU------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------------------CAATTTTTGACGTTGTTGTTTG----	22	1
celegans	gatgttattattttaagtcttctagaattcattctccgttaccgagaaaaCAATTTTTGACGTTGTTGTTTGcatt
	****************************************************************************
celegans	(((((....((..((((((....((((((..(((((.......)))))...)))))).))).)))..))..)))))	0.950 -10.20

celegans

chromosome:I:5488180:5488255:-1

intergenic ## {SimpF: WRM0636cF03 -1 fosmid,WRM0633aG08 -1 fosmid,WRM0613bH03 -1 fosmid,WRM0633dH04 -1 fosmid,WRM066cC07 -1 fosmid}

block655 [novel_shortStem]

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	0.397	no	no	0.50/0.50	24/24/1.00	0.0	0.0	2	0	1	0	4	11	3arm	2	nd	0.21	2	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------UCGAUCU--------------------	2	novel
		len	cloning frequencies
			CE1
	----------------------------------------------------------------------GTCGATCTTCTTATGGTCCCAGGT----	24	2
celegans	atgttttattggaaatatggaaaaggccatgagttgagttgtttcttggctgagtactggctcttcttgtGTCGATCTTCTTATGGTCCCAGGTagca
	**************************************************************************************************
	------------------------------------------------------------------------------------------------------------	ZK337.1a.2 ZK337.1 ZK337.1
	------------------------------------------------------------------------------------------------------------	ZK337.1c.2 ZK337.1 ZK337.1
	------------------------------------------------------------------------------------------------------------	ZK337.1b.2 ZK337.1 ZK337.1
	......................................................................................<<<<<<<<<<<<<<<<<<<<<<	ZK337.6 ZK337.6 nspd-11
celegans	.((((...((((............(((((((((..((.(((......((..((((....))))..)).....)))))..)))))))))))))..))))	0.690 -22.10

celegans

chromosome:I:14993930:14994027:-1

Opposite_strand|Intronic_non-coding|ZK337.1b.2|ZK337.1 ## Opposite_strand|Boundary_non-coding|ZK337.1c.1|ZK337.1 ## ZK337.6|pseudogene|nspd-11| ## ZK337.1|protein_coding|ZK337.1|ZK337.1b [Source:RefSeq_peptide;Acc:NP_493613] ## {SimpF: WRM0627cG12 -1 fosmid,WRM0636cA03 -1 fosmid,WRM0622bD06 -1 fosmid,WRM0617bB11 -1 fosmid,WRM0620bH09 -1 fosmid,WRM0611dF09 -1 fosmid,WRM0631aD09 -1 fosmid,WRM0625bD01 -1 fosmid,WRM068aA07 -1 fosmid,WRM0629cD01 -1 fosmid}

block733 [novel_shortStem]

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	0.066	no	no	0.71/0.71	24/24/1.00	0.0	0.0	1	0	1	0	0	0	5arm	1	nd	0.17	1	1	1	na	na

		reads	miRBase family seed
seed	-GUCUGGC----------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	CGTCTGGCGCAGCCGGTTGGCTGT------------------------------	24	1
celegans	CGTCTGGCGCAGCCGGTTGGCTGTtcgcacagtaaactgtagcgcgctggttcg
	******************************************************
celegans	((.(((((((.(((((((.(((((....))))).)))))..)))))))))..))	0.910 -21.80

celegans

chromosome:I:2410128:2410181:1

intergenic

block1546 [novel_shortStem]

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	0.231	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	0	7	5arm	2	nd	0.10	1	1	1	na	na

		reads	miRBase family seed
seed	-ACAGUUU----------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	TACAGTTTGTGTGATGCGTC----------------------------------------------	20	1
celegans	TACAGTTTGTGTGATGCGTCaacggagagctcagttccttgatatgccgtatccgcaggaatcgta
	******************************************************************
celegans	(((.((((.(((((((((((((.((((.......)))))))).....)))))).))).)))).)))	1.000 -17.40