miR-Intess: classification

other hairpins

block901 [novel_loopOverlap]

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	0.292	no	no	0.42/0.42	24/24/1.00	0.0	0.0	1	0	1	0	16	-1	5arm_loop	1	nd	0.29	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------UAAGACG------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	----------------GTAAGACGGCAGGTATATTTAGTG--------------------------------------------	24	1
celegans	tggtagttcaagaattGTAAGACGGCAGGTATATTTAGTGaacggacttcatgtacttctctgtgaatgcaagatgagccagct
	************************************************************************************
	.......................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ZK484.7 ZK484.7 ZK484.7
celegans	.(((.(((((....(((((..((((.((((((((..(((......)))..))))))))..))))...)))))..)))))..)))	1.000 -18.60

celegans

chromosome:I:6095099:6095182:1

Opposite_strand|Boundary_non-coding|ZK484.7|ZK484.7 ## ZK484.7|protein_coding|ZK484.7|ZK484.7 [Source:RefSeq_peptide;Acc:NP_491758] ## {SimpF: WRM0627cE01 1 fosmid,WRM0640cD10 1 fosmid,WRM0623cH06 1 fosmid}

block3120 [novel_loopOverlap]

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	0.816	no	no	0.43/0.43	21/21/1.00	0.0	0.0	1	0	1	0	14	-1	5arm_loop	1	nd	0.29	2	1	1	na	na

		reads	miRBase family seed
seed	---------------UGUAUAA--------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--------------GTGTATAATGAGTCCATGTCG-------------------------------------------	21	1
celegans	ggaacagaggcatcGTGTATAATGAGTCCATGTCGaatgacgtgctccaaaatttcttcttgtgatgatccgaaaccc
	******************************************************************************
celegans	........((.(((((.(((((.(((..((((((....))))))...........))).)))))))))))).......	0.460 -13.52

celegans

chromosome:III:8191103:8191180:-1

intergenic ## {SimpF: WRM0625dD10 -1 fosmid,WRM0620cG02 -1 fosmid,WRM064aF08 -1 fosmid}

block3139 [novel_loopOverlap]

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	0.435	no	no	0.23/0.23	22/22/1.00	0.0	0.0	1	0	1	0	10	-1	3arm	1	nd	0.18	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------GAGCAUU------------------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------------AGAGCATTTATTTTCATTTTTC----------	22	1
celegans	gcttctacttattaagaatggaaacgatccatgacatcctAGAGCATTTATTTTCATTTTTCttggtgtgca
	************************************************************************
	----------------------------------------------------------------------------------	C02D5.3a C02D5.3 gsto-2
celegans	((...((((....(((((((((((.((...(((...((...)).))))).)))))))))))...)))).)).	0.670 -9.90

celegans

chromosome:III:8554294:8554365:-1

Opposite_strand|Intronic_coding|C02D5.3a|C02D5.3 ## Opposite_strand|Boundary_non-coding|C02D5.3b|C02D5.3 ## C02D5.3|protein_coding|gsto-2|C02D5.3 is predicted to encode, by alternative splicing and an internal promoter, three partially non-overlapping putative omega-class glutathione transferases (GST. EC 2.5.1.18) which, like their paralog GSTO-1, might have thiol oxidoreductase and dehydroascorbate reductase activity. other C02D5.3 paralogs include GST-44 and K10F12.4. C02D5.3 has no obvious function in mass RNAi assays. [Source: WormBase] ## {SimpF: WRM0625dF04 -1 fosmid,WRM0611bF07 -1 fosmid,WRM0639dC05 -1 fosmid,C02D5.3 -1 Expression_profile,WRM063aE04 -1 fosmid,WRM0618cD06 -1 fosmid,WRM066dD11 -1 fosmid,WRM0623dH08 -1 fosmid}

block3736 [novel_loopOverlap]

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	0.355	no	no	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	7	-2	3arm_loop	1	nd	0.29	2	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------ACUGUAC--------------------	1	novel
		len	cloning frequencies
			CE1
	----------------------------------------GACTGTACGATGGCGGCTAAG-------	21	1
celegans	attcttcaaatctatccgaatcatcttcaataggattgttGACTGTACGATGGCGGCTAAGaagaatc
	********************************************************************
	------------------------------------------------------------------------------	K12H4.8 K12H4.8 dcr-1
celegans	(((((((.....((.(((...((((....((((.........))))..)))).))).)).))))))).	0.440 -11.40

celegans

chromosome:III:8077692:8077759:1

Opposite_strand|Intronic_coding|K12H4.8|K12H4.8 ## K12H4.8|protein_coding|dcr-1|The dcr-1 gene encodes a bidentate ribonuclease that is homologous to E. coli RNAse III. dcr-1 is required both for RNA interference and for synthesis of small developmental RNAs. DCR-1 interacts in vivo with RDE-4, a double-stranded RNA (dsRNA) binding protein required for RNAi that interacts with trigger dsRNAs and may function to deliver dsRNAs to DCR-1 for endonucleolytic processing. [Source: WormBase] ## {SimpF: WRM0624cH05 1 fosmid,WRM066bH04 1 fosmid,WRM0625aB07 1 fosmid,WRM069aD03 1 fosmid,WRM0626aF12 1 fosmid,WRM0617bG01 1 fosmid}

block4660 [novel_loopOverlap]

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	0.812	no	no	0.38/0.38	21/21/1.00	0.0	0.0	1	0	1	0	14	-2	5arm_loop	1	nd	0.29	3	1	1	na	na

		reads	miRBase family seed
seed	---------------AUAAACU----------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	--------------GATAAACTCTTGAATTGGCTG---------------------------------------------	21	1
celegans	tgttcggacatctcGATAAACTCTTGAATTGGCTGaaacgtcggctcacgggtgaaatatggagcactgctgccgctgct
	********************************************************************************
celegans	.((.(((.((.(((.(((.((((.(((.(((((......))))).))).))))....))).)))...))...)))..)).	0.940 -18.10

celegans

chromosome:IV:12640707:12640786:-1

intergenic ## {SimpF: WRM068bH03 -1 fosmid,WRM064cA08 -1 fosmid}

block4923 [novel_loopOverlap]

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	0.637	no	no	0.29/0.29	21/21/1.00	0.0	0.0	1	0	1	0	13	-1	3arm	1	nd	0.14	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------AUUUACU--------------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------------TATTTACTCACTGGAAAATTG-------------	21	1
celegans	ttcaagttgttgatatattttcatatagtttgagtacaatttgaTATTTACTCACTGGAAAATTGactcataaagaac
	******************************************************************************
celegans	(((...(((.(((...((((((...((((..(((((.(((.....))))))))))))))))))....)))))).))).	0.420 -8.40

celegans

chromosome:IV:15326213:15326290:-1

intergenic

block7253 [novel_loopOverlap]

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	0.449	no	no	0.38/0.38	24/24/1.00	0.0	0.0	1	0	1	0	30	-2	3arm_loop	1	nd	0.21	2	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------UUGACAG----------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-------------------------------------------------------------GTTGACAGTTGAATTGTATGCTTG------------------------------	24	1
celegans	cgagaaagctattacatgatattgcaaaaagcatcgaaataacaattataatgatcattatGTTGACAGTTGAATTGTATGCTTGaccagatgaagaaagtagaaataatttttc
	*******************************************************************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<..............................................................	F46B6.10 F46B6.10 F46B6.10
celegans	.((((((.(((((......((((.....((((((.......((((((.((((..(((......)))..)))))))))))))))).....)))).....)))))......))))))	0.630 -16.51

celegans

chromosome:V:9801943:9802057:1

intergenic ## {SimpF: WRM068aG11 1 fosmid,WRM0611dG11 1 fosmid,WRM0637bH03 1 fosmid,F46B6.10 1 Expression_profile,WRM0624cC06 1 fosmid,WRM0629dD12 1 fosmid}

block7813 [novel_loopOverlap]

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	0.181	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	5	-3	3arm_loop	1	nd	0.25	2	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------UCGGAUG-----------------	1	novel
		len	cloning frequencies
			CE1
	-----------------------------------------CTCGGATGAGTAGGACCAGG-----	20	1
celegans	ggcgccctgcctgcttatgatatataacttctccaaacaccCTCGGATGAGTAGGACCAGGagtcc
	******************************************************************
celegans	(((..((((((((((((..............(((..........)))))))))))..)))).))).	0.800 -16.63

celegans

chromosome:X:9071845:9071910:-1

intergenic ## {SimpF: WRM0618cD09 -1 fosmid,WRM0628cH04 -1 fosmid,WRM0640aD06 -1 fosmid,WRM065aH11 -1 fosmid,WRM064bH10 -1 fosmid,WRM067aE10 -1 fosmid,WRM0620aD04 -1 fosmid}

block4108 [novel_loopOverlap]

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	0.359	no	no	0.35/0.35	20/20/1.00	0.0	0.0	1	0	1	0	12	-1	5arm_loop	1	nd	0.30	2	1	1	na	na

		reads	miRBase family seed
seed	-------------AUUUAUC------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	------------GATTTATCTTGGAGCATTTG------------------------------------	20	1
celegans	agcttaccgaaaGATTTATCTTGGAGCATTTGagcgaagggatggtctacagtaaagttgaggggtgc
	********************************************************************
celegans	.((...((..((..(((((..((((.(((((........))))).))))..))))).))..))...))	0.940 -14.00

celegans

chromosome:IV:3897141:3897208:-1

intergenic ## {SimpF: WRM0641bD04 -1 fosmid,WRM0634bC03 -1 fosmid,WRM0628dD05 -1 fosmid,WRM068aF02 -1 fosmid}

block4412 [novel_loopOverlap]

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	0.152	no	no	0.48/0.48	23/23/1.00	0.0	0.0	1	0	1	0	11	-2	3arm_loop	2	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------AUGAUGA--------------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------TATGATGAGTTCGGGCGATGATC-----------	23	1
celegans	agtcttcagtatgggtcaatctctgatctgcaactgaaTATGATGAGTTCGGGCGATGATCttctgtgatta
	************************************************************************
celegans	((((..(((...(((((.((((((((.((.((........))...)).))))).)))))))).))).)))).	0.880 -16.10