miR-Intess: classification

other hairpins

novel_lenNOK_nonpairedHIGH_bulgeHIGH (44 loci)

block637 [novel_lenNOK_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	0.168	no	no	0.47/0.47	19/19/0.00	0.0	0.0	1	0	1	0	16	13	5arm	1	nd	0.53	5	1	1	na	na

		reads	miRBase family seed
seed	-----------------GAAAAGU------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------GGAAAAGTTGGACGCTAAG-------------------------------------------------------------	19	1
cbriggsae	caagaaggcaatttttGGAAAAGTTGGACGCTAAGaatcaaatttttcataaaatcgaaaaatgcgtcaactgtcggaacacagaatagcttgttg
	************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_006287
cbriggsae	(((..((((.(((((((....((((.(((((..........(((((((........)))))))))))))))).......)).))))).)))).)))	0.790 -17.70

cbriggsae

chromosome:chrII:4541038:4541133:-1

Same_strand|Intronic_non-coding|NM_006287|TFPI ## {Repeats: no}

block776 [novel_lenNOK_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	0.029	no	no	0.11/0.11	18/18/0.00	0.0	0.0	1	0	1	0	35	7	5arm	1	nd	0.50	4	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------AUUUUUC---------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------GATTTTTCATTATTTTTT-----------------------------------------------------------------	18	1
cbriggsae	agatcttttggtttttctgaattttcatactttctGATTTTTCATTATTTTTTtgatgttcctgaacatctgaatatccgagttctggttttttgaactttttgattttcctgatttt
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001038232
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_062121
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061791
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001854
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_131292
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_080629
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_032085
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001038233
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113224
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_061723
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_080630
	--------------------------------------------------------------------------------------------------------------------------------	NM_001123511
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001001135
cbriggsae	(((((....((....((.(((..((((.....((.((...(((..(((((....((((((....)))))).)))))...))).)).)).....))))..))).))....)).))))).	0.600 -17.60

cbriggsae

chromosome:chrII:11193292:11193409:-1

Same_strand|Intronic_coding|NM_001038232|bath-20 ## Opposite_strand|Intronic_non-coding|NM_001123511|rab7 ## {Repeats: no}

block826 [novel_lenNOK_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	0.736	no	no	0.54/0.54	26/26/0.00	0.0	0.0	1	0	1	0	8	5	5arm	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	---------AAGACCG----------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------GAAGACCGGATAGCCTTTGGACAGGT----------------------------------------------	26	1
cbriggsae	tcaattttGAAGACCGGATAGCCTTTGGACAGGTcgtgggacttcgcgacagccgtcgagcctttttttgctggaattga
	********************************************************************************
	------------------------------------------------------------------------------------------	NM_001030387
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_062091
cbriggsae	(((((((...((...(((.((.((((((....(((((((....)))))))..)))..))).)).)))...)).)))))))	0.610 -18.00

cbriggsae

chromosome:chrII:13127444:13127523:-1

Opposite_strand|Intronic_non-coding|NM_001030387|ARIH1 ## Same_strand|Intronic_coding|NM_062091|F02E11.2 ## {Repeats: no}

block883 [novel_lenNOK_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	0.249	no	no	0.39/0.39	18/18/0.00	0.0	0.0	1	0	1	0	14	16	3arm	7	nd	0.56	4	1	1	na	na

		reads	miRBase family seed
seed	----------------------------------------------------------------------AAUUGAC------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------------------------------------------CAATTGACACTGAAGAAC--------------	18	1
cbriggsae	gatttagaacactcccggctttagagaaaagaagacacaacgaaattaaaaattagttgtccattggtcCAATTGACACTGAAGAACtgagtgactacgtc
	*****************************************************************************************************
	---------------------------------------------------------------------------------------------------------------	NM_000215
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_131262
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000767
	---------------------------------------------------------------------------------------------------------------	NM_062405
cbriggsae	(((.(((..(((((....((((((....((...(((.(((.(((((((.....))))).))..))))))...))....))))))....))))).))).)))	0.400 -18.00

cbriggsae

chromosome:chrII:2523487:2523587:1

Opposite_strand|Intronic_non-coding|NM_000215|JAK3 ## Same_strand|Intronic_non-coding|NM_131262|myod1 ## {Repeats: no}

block1079 [novel_lenNOK_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	0.372	no	no	0.68/0.68	25/25/0.00	0.0	0.0	1	0	1	0	14	16	3arm	1	nd	0.36	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------CGGUGUU-------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------GCGGTGTTAGCGACGAAGCGAGCGG--------------	25	1
cbriggsae	gctggtacggcgttcctgacttccgaagacgaatctcgctgcgaatttttgacctatcattctgataggtatctccagaGCGGTGTTAGCGACGAAGCGAGCGGacgtcacggcctgt
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001030387
	--------------------------------------------------------------------------------------------------------------------------------	NM_062091
cbriggsae	((((....(((((((((..((((......((.....((((((.........(((((((.....))))))).........))))))....))..))))..)).))))))).))))....	0.490 -37.47

cbriggsae

chromosome:chrII:13134955:13135072:1

Same_strand|Intronic_non-coding|NM_001030387|ARIH1 ## Opposite_strand|Intronic_coding|NM_062091|F02E11.2 ## {Repeats: no}

block1259 [novel_lenNOK_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	0.414	no	no	0.33/0.33	18/18/0.00	0.0	0.0	1	0	1	0	11	16	3arm	1	nd	0.33	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------AUAUCCA---------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------------TATATCCATGTTACTGAC-----------	18	1
cbriggsae	ggttgaaaacttaaaaagtgataggaattccaaaaattactgtttcaaaattctcattaagcatttcctggattttgaagattgcTATATCCATGTTACTGACaaaactttacc
	******************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------	NM_171402
	----------------------------------------------------------------------------------------------------------------------------	NM_171401
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001102902
	----------------------------------------------------------------------------------------------------------------------------	NM_023042
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065190
	----------------------------------------------------------------------------------------------------------------------------	NM_001104714
	----------------------------------------------------------------------------------------------------------------------------	NM_001082042
	----------------------------------------------------------------------------------------------------------------------------	NM_001011581
cbriggsae	(((.............((((((((((((..(((.........(((((((((((................))))))))))).)))..)).))).)))))))...........)))	0.580 -16.44

cbriggsae

chromosome:chrIII:116271:116384:-1

Opposite_strand|Intronic_coding|NM_171402|C09G4.2 ## Same_strand|Intronic_non-coding|NM_001102902|LOC100124966 ## Opposite_strand|Intronic_non-coding|NM_023042|Recql ## {Repeats: no}

block1320 [novel_lenNOK_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	0.272	no	no	0.54/0.54	26/26/0.00	0.0	0.0	1	0	1	0	14	8	5arm	1	nd	0.38	4	1	1	na	na

		reads	miRBase family seed
seed	---------------GUUGAGA---------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	--------------GGTTGAGAACAGTGATGCTGAGCTGG---------------------------------------------------------------	26	1
cbriggsae	cacaagtccagaatGGTTGAGAACAGTGATGCTGAGCTGGatgggatttgctgattccgaaatacagacttccaaaatgttctgaagcagtccagagtggtgg
	*******************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------	NM_001011629
	-----------------------------------------------------------------------------------------------------------------	NM_172925
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065286
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001093260
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_009573
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_130279
cbriggsae	(((...((..((.((.((.((((((....((..((((((..(((((((....))))))).....))).))).))...)))))).)).)).))..))...))).	0.940 -25.20

cbriggsae

chromosome:chrIII:2266149:2266251:-1

Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Same_strand|Intronic_non-coding|NM_065286|Y53G8AR.6 ## {Repeats: no}

block1324 [novel_lenNOK_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	0.757	no	no	0.48/0.48	25/25/0.00	0.0	0.0	1	0	1	0	25	11	5arm	1	nd	0.40	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------------UUGUCUG---------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------GTTGTCTGAGAGCTCTATTGGTGTC----------------------------------------------------------------------	25	1
cbriggsae	acgatttattgaaaaaaagttaaacGTTGTCTGAGAGCTCTATTGGTGTCacaaaacgagcgagtagttcgatggtatacgcaagttgcactcctgaaaatttgaattgccaattattcg
	************************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------------------	NM_001011629
	----------------------------------------------------------------------------------------------------------------------------------	NM_172925
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065286
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001093260
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_009573
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_130279
cbriggsae	.(((...((((..((....(((((.....((.(((.((....(((((((.((....(((((.....)))))...)))))).)))...)).)))..))...))))).))..))))...)))	0.560 -21.10

cbriggsae

chromosome:chrIII:2283300:2283419:-1

Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Same_strand|Intronic_non-coding|NM_065286|Y53G8AR.6 ## {Repeats: no}

block1381 [novel_lenNOK_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	0.254	no	no	0.17/0.17	18/18/0.00	0.0	0.0	1	0	1	0	8	11	3arm	3	nd	0.39	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------UUGAUUG------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------TTTGATTGTAAGTTTTTT--------	18	1
cbriggsae	agttcgagatttcttcaagaactcaaaaccgtcaagaatggtatttggTTTGATTGTAAGTTTTTTtccatact
	**************************************************************************
	------------------------------------------------------------------------------------	NM_030820
	------------------------------------------------------------------------------------	NM_001102156
	------------------------------------------------------------------------------------	NM_001022613
cbriggsae	(((..((((...((((((((((.(((((((((.....))))).))))))))..))).)))....))))...)))	0.990 -12.40

cbriggsae

chromosome:chrIII:5538119:5538192:-1

Opposite_strand|Intronic_coding|NM_030820|COL21A1 ## {Repeats: no}

block1699 [novel_lenNOK_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	0.208	no	no	0.17/0.17	18/18/0.00	0.0	0.0	1	0	1	0	8	11	3arm	3	nd	0.39	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------UUGAUUG------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------TTTGATTGTAAGTTTTTT--------	18	1
cbriggsae	agttcgagatttcttcaagaactcaaaaccgtcaagaatggtatttggTTTGATTGTAAGTTTTTTtccttact
	**************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_030820
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001102156
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001022613
cbriggsae	(((..((((...((((((((((.(((((((((.....))))).))))))))..))).)))....))))...)))	0.500 -12.40