miR-Intess: classification

other hairpins

novel_lenNOK_cloningOK_shortStem_nonpairedHIGH_bulgeHIGH (2 loci)

block7131 [novel_lenNOK_cloningOK_shortStem_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	0.766	no	no	0.50/0.57	22/26/0.33	0.0	0.0	4	0	1	0	1	16	5arm	2	nd	0.38	5	6	1	na	na

		reads	miRBase family seed
seed	--CAUCGAC----------------------------------------------------------------------------------	5	novel
seed	-CCAUCGA-----------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-CCATCGACACCAACTTGACCGTTGTT----------------------------------------------------------------	26	4
	CCCATCGACACCAACTTGACCGT--------------------------------------------------------------------	23	1
	-CCATCGACACCAACTTGACCGT--------------------------------------------------------------------	22	1
celegans	cCCATCGACACCAACTTGACCGTTGTTttgttctttttcaacgatattctaaccggaaagatgaactgatttcatttggtttctcagaagg
	*******************************************************************************************
celegans	.((.((((.(((((..(((.....(((..((((((((((..((..........)))))))).)))).))).))).))))).))...)).))	0.630 -13.10

celegans

chromosome:V:5587376:5587466:1

intergenic ## {SimpF: WRM0631cD06 1 fosmid,WRM0616aH11 1 fosmid,WRM0624bF07 1 fosmid,WRM0628dG08 1 fosmid,WRM0625aB06 1 fosmid}

novel_lenNOK_loopOverlap (2 loci)

block3841 [novel_lenNOK_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	0.650	no	no	0.58/0.58	19/19/0.00	0.0	0.0	1	0	1	0	23	-1	3arm	1	nd	0.26	2	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------UACGAGU----------------------------------	1	novel
		len	cloning frequencies
			CE1
	--------------------------------------GTACGAGTTGGCGACCACT-----------------------	19	1
celegans	atctgaatgttgatcactggccggagacttttagccacGTACGAGTTGGCGACCACTgaaaaagatacattttttaaaga
	********************************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<------------------------------	T07C4.11 T07C4.11 T07C4.11
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<------------------------------	T07C4.12 T07C4.12 T07C4.12
celegans	....((((((...(((.(((.((..(((((.((......)).)))))..)).))).))).......))))))........	0.690 -13.00

celegans

chromosome:III:10331567:10331646:1

Opposite_strand|Boundary_coding|T07C4.12|T07C4.12 ## Opposite_strand|Boundary_non-coding|T07C4.11|T07C4.11 ## T07C4.12|protein_coding|T07C4.12|T07C4.12 [Source:RefSeq_peptide;Acc:NP_001040872] ## T07C4.11|protein_coding|T07C4.11|T07C4.11 [Source:RefSeq_peptide;Acc:NP_001040871] ## {SimpF: CEOP3844 -1 Operon,WRM065aG10 1 fosmid,WRM0624bB02 1 fosmid,WRM0616cE05 1 fosmid}

block4690 [novel_lenNOK_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	0.028	no	no	0.36/0.36	25/25/0.00	0.0	0.0	1	0	1	0	11	-2	3arm_loop	1	nd	0.28	2	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------AUUUGUC----------------------------	1	novel
		len	cloning frequencies
			CE1
	---------------------------------------GATTTGTCTGCCATCTTGATGTTTT-----------	25	1
celegans	ttcttgtggtttccgattgcatcgactggcacgaaagctGATTTGTCTGCCATCTTGATGTTTTctgaaatggaa
	***************************************************************************
	<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<...........................	Y45F10B.3 Y45F10B.3 Y45F10B.3
celegans	........(((((.((..(((((((.(((((((((......)))))..))))..)))))))..)).)))))....	1.000 -21.00

celegans

chromosome:IV:13593597:13593671:-1

Opposite_strand|Boundary_non-coding|Y45F10B.3|Y45F10B.3 ## Y45F10B.3|protein_coding|Y45F10B.3|Y45F10B.3 [Source:RefSeq_peptide;Acc:NP_502622] ## {SimpF: WRM0615bH05 -1 fosmid,Y45F10B.3 -1 Expression_profile}

novel_lenNOK_mirtron_nonpairedHIGH_bulgeHIGH (2 loci)

block960 [novel_lenNOK_mirtron_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	0.461	no	no	0.29/0.29	28/28/0.00	0.0	0.0	2	0	1	0	13	10	3arm	1	0	0.32	4	2	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------AUAAACA---------------------------------	2	novel
		len	cloning frequencies
			CE1
	-------------------------------------------------------------------AATAAACATTGAGTTATTCATTTCGCAG-------------	28	2
celegans	ccagagatcgttgagaagcaggcagacaatgatgttcagtttgttgatggtaagtgttttacttggcAATAAACATTGAGTTATTCATTTCGCAGatcaacaagtggg
	************************************************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>	H27M09.3 H27M09.3 H27M09.3
celegans	(((......(((((.......((.((.(((((..((((((((((((..((((((...))))))...))))))))..))))....)))))))))...)))))...))).	0.510 -21.90

celegans

chromosome:I:6849223:6849330:1

Same_strand|Intronic_coding|H27M09.3|H27M09.3 ## H27M09.3|protein_coding|H27M09.3|H27M09.3 [Source:RefSeq_peptide;Acc:NP_491960] ## {SimpF: WRM0616cA04 1 fosmid,CEOP1902 1 Operon,WRM062cA05 1 fosmid,WRM0640aH10 1 fosmid}

block5521 [novel_lenNOK_mirtron_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	0.680	no	no	0.28/0.28	18/18/0.00	0.0	0.0	1	0	1	0	12	9	3arm	1	4	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------UGACCAU----------------------	1	novel
		len	cloning frequencies
			CE1
	---------------------------------------------------TTGACCATATTTAATTCC------------	18	1
celegans	tataatgcttcggatatgttttaagtttcaatctaattttataattttcaaTTGACCATATTTAATTCCaggagatctgta
	*********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>	Y73B6BL.42 Y73B6BL.42 acr-25
celegans	((((...(((((((......((((((.(((((..((((....))))....)))))....)))))).))).))))...))))	0.970 -8.10

celegans

chromosome:IV:6464658:6464738:1

Same_strand|Intronic_coding|Y73B6BL.42|Y73B6BL.42 ## Y73B6BL.42|protein_coding|acr-25|Y73B6BL.42 [Source:RefSeq_peptide;Acc:NP_001023570] ## {SimpF: WRM0637bC06 1 fosmid,WRM0613aC08 1 fosmid}

novel_lenNOK_shortStem_5varHIGH_nonpairedHIGH_bulgeHIGH (2 loci)

block1325 [novel_lenNOK_shortStem_5varHIGH_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	0.110	no	no	0.42/0.47	19/24/0.50	1.5	1.0	2	0	1	0	0	16	3arm	3	nd	0.42	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------UUUGGAA----------------	1	novel
seed	------------------------------------------------------------GGAAGUU-------------	1	novel
		len	cloning frequencies
			CE1
	-----------------------------------------------------------TGGAAGTTTCGGTTGTTGC--	19	1
	--------------------------------------------------------CTTTGGAAGTTTCGGTTGTTGCAT	24	1
celegans	ttgcgccgatccatagatattgctgatgattcgcgtcgaggcgcttgagtctgaagCTTTGGAAGTTTCGGTTGTTGCAT
	********************************************************************************
celegans	.((((((((((((........(((...(((((((((....))))..)))))...)))..))))....)))))....))).	0.950 -23.70

celegans

chromosome:I:15061846:15061925:1

intergenic ## {SimpF: WRM066aE11 1 fosmid,WRM068cA11 1 fosmid,WRM067aB07 1 fosmid,WRM0628aC12 1 fosmid,WRM0625cG10 1 fosmid,WRM0619bG03 1 fosmid,WRM0629dE08 1 fosmid,WRM0637dE09 1 fosmid,WRM0623dH11 1 fosmid,WRM0631aD12 1 fosmid,WRM0640bG08 1 fosmid,WRM0626cH01 1 fosmid,WRM066cF11 1 fosmid,WRM0615cH09 1 fosmid}

block1455 [novel_lenNOK_shortStem_5varHIGH_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	0.110	no	no	0.42/0.47	19/24/0.50	1.5	1.0	2	0	1	0	0	16	3arm	3	nd	0.42	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------------UUUGGAA----------------	1	novel
seed	------------------------------------------------------------GGAAGUU-------------	1	novel
		len	cloning frequencies
			CE1
	-----------------------------------------------------------TGGAAGTTTCGGTTGTTGC--	19	1
	--------------------------------------------------------CTTTGGAAGTTTCGGTTGTTGCAT	24	1
celegans	ttgcgccgatccatagatattgctgatgattcgcgtcgaggcgcttgagtctgaagCTTTGGAAGTTTCGGTTGTTGCAT
	********************************************************************************
celegans	.((((((((((((........(((...(((((((((....))))..)))))...)))..))))....)))))....))).	0.950 -23.70

celegans

chromosome:I:15069043:15069122:1

intergenic ## {SimpF: WRM066aE11 1 fosmid,WRM067aB07 1 fosmid,WRM0628aC12 1 fosmid,WRM0637dE09 1 fosmid,WRM0640bG08 1 fosmid}

novel_randfoldOK_bulgeHIGH (2 loci)

block1131 [novel_randfoldOK_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	0.35/0.35	20/20/1.00	0.0	0.0	1	0	1	0	24	9	3arm	2	nd	0.25	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------UAUUAGU------------------------------------	1	miR-230
		len	cloning frequencies
			CE1
	-----------------------------------------------------------CTATTAGTGTGGATCTCTTT------------------------	20	1
celegans	ccacagccattgaggcactaaagaaaaagtatactgtaggcggggtgctccgctcctgcCTATTAGTGTGGATCTCTTTattccactctcgtatggttaggga
	*******************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	F49D11.4 F49D11.4 F49D11.4
celegans	((..(((((((((((...((((((.....((((((((((((((((((...))).))))))))).))))))....))))))......))))).))))))..)).	0.690 -36.80

celegans

chromosome:I:10913785:10913887:1

Same_strand|Intronic_coding|F49D11.4|F49D11.4 ## F49D11.4|protein_coding|F49D11.4|F49D11.4 [Source:RefSeq_peptide;Acc:NP_492845] ## {SimpF: F49D11.4 1 Expression_profile,WRM0634dE11 1 fosmid}

block8002 [novel_randfoldOK_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	0.36/0.36	22/22/1.00	0.0	0.0	1	0	1	0	29	6	3arm	3	nd	0.23	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------AACCACU-------------------------------------------	1	novel
		len	cloning frequencies
			CE1
	-------------------------------------------------------------------CAACCACTGGAATTTCTCTATT-----------------------------	22	1
celegans	tgtacgatcttcttagccatattataagtaagtgaagttcaagatggttgtaaaacattgagtactaCAACCACTGGAATTTCTCTATTgcatttttggatgggcaaagttgtagtac
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	F39B1.1 F39B1.1 F39B1.1
celegans	.((((......(((.(((.((((..((((((..(((((((.((.((((((((..((.....))..)))))))))).)))))))....)))).))....))))))).))).....))))	0.930 -31.40

celegans

chromosome:X:15237061:15237178:-1

Same_strand|Intronic_coding|F39B1.1|F39B1.1 ## F39B1.1|protein_coding|F39B1.1|F39B1.1 [Source:RefSeq_peptide;Acc:NP_510529] ## {SimpF: WRM0639bH04 -1 fosmid,WRM0635aF06 -1 fosmid,WRM0621bC05 -1 fosmid,WRM068aA02 -1 fosmid,WRM0611bA02 -1 fosmid,WRM0629dB10 -1 fosmid}

novel_shortStem_loopOverlap_nonpairedHIGH_bulgeHIGH (2 loci)

block3589 [novel_shortStem_loopOverlap_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	0.364	no	no	0.62/0.62	24/24/1.00	0.0	0.0	1	0	1	0	0	-4	5arm_loop_3arm	2	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	-AAAAGCG--------------------------------------	1	novel
		len	cloning frequencies
			CE1
	CAAAAGCGACCGCGTGGTGCAGTG----------------------	24	1
celegans	CAAAAGCGACCGCGTGGTGCAGTGgccggaccgcgcttgtgagttg
	**********************************************
celegans	(((..((((..(((((((((....))...)))))))))))...)))	1.000 -14.10