miR-Intess: classification

other hairpins

novel_lenNOK_nonpairedHIGH_bulgeHIGH (44 loci)

block3272 [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	0.065	no	no	0.58/0.60	19/20/0.50	0.0	0.5	2	0	1	0	27	6	3arm	1	nd	0.42	4	2	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------AGCCGUC---------------------------------------	2	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------AAGCCGTCAACTCCAGGAG----------------------------	19	1
	-------------------------------------------------------------AAGCCGTCAACTCCAGGAGC---------------------------	20	1
cbriggsae	attatacaggcgggtgagtgattccccttctgggtcaaaccaactgaggtggtaacatcgcAAGCCGTCAACTCCAGGAGCtgtatcgctttgcatccatctgcataa
	************************************************************************************************************
cbriggsae	.((((.(((..(((((((((((....(((((((((...((....((.((((....)))).))....))..)).)))))))....))))))...)))))..))).))))	0.860 -32.20

cbriggsae

chromosome:chrUn:5192507:5192614:-1

{Repeats: no}

block3496 [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	0.696	no	no	0.26/0.26	27/27/0.00	0.0	0.0	1	0	1	0	19	7	5arm	2	nd	0.44	4	1	1	na	na

		reads	miRBase family seed
seed	--------------------UUUUAUA----------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------GTTTTATAATAATTGGGATAGTTGTAG---------------------------------------------------------------	27	1
cbriggsae	ccagttttttcttagtcttGTTTTATAATAATTGGGATAGTTGTAGtggagctataaatacagctttaactaatcgtctaggtgattatttcatatttgtcttttttgg
	*************************************************************************************************************
cbriggsae	((((........(((...((....(((((.((..(((..((((...(((((((........)))))))..))))..)))..)).)))))..))...)))......))))	0.440 -15.34

cbriggsae

chromosome:chrUn:4253650:4253758:1

{Repeats: no}

block4133 [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	0.440	no	no	0.37/0.37	19/19/0.00	0.0	0.0	1	0	1	0	24	11	5arm	1	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------AUUUGUU------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------GATTTGTTAGTCATCGGTT-------------------------------------------------------------------	19	1
cbriggsae	gagatcagaatttgaaatttagaaGATTTGTTAGTCATCGGTTgttcactgtcgttacgaattcgagcacttggtcatagagtttcttcttcgcgtcttgtggaatctct
	**************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	------------------------------------------------------------------------------------------------------------------------	NM_070507
	------------------------------------------------------------------------------------------------------------------------	NM_001022613
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007842
	------------------------------------------------------------------------------------------------------------------------	NM_001047733
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001298
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001056446
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001066295
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001066297
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_137186
	------------------------------------------------------------------------------------------------------------------------	NM_003299
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_212567
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001079878
	................................................<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	NM_074285
cbriggsae	((((((...((..((.....((((((....(((...(((((.(((((....(((...)))....))))).)))))..)))....)))))).....))..)).)).)))).	0.940 -23.20

cbriggsae

chromosome:chrV:11749799:11749908:1

Same_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Opposite_strand|Intronic_non-coding|NM_070507|Y105C5B.19 ## Opposite_strand|Intronic_coding|NM_001022613|SPBC215.13 ## Same_strand|Intronic_coding|NM_007842|Dhx9 ## Opposite_strand|UTR_non-coding|NM_074285|T01C3.2 ## {Repeats: no}

block4348 [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	0.309	no	no	0.36/0.36	25/25/0.00	0.0	0.0	1	0	1	0	13	22	5arm	1	nd	0.40	4	1	1	na	na

		reads	miRBase family seed
seed	--------------GAUAUUG-------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------GGATATTGAGATCATCACGGTTTTT--------------------------------------------------------------------------------	25	1
cbriggsae	acgcagagtttcaGGATATTGAGATCATCACGGTTTTTgtaatgtcttctggagctatggaatcgcttggagctgcagaacctgcaaacgtaatgacatttttttctaatttcggcgt
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_070961
	--------------------------------------------------------------------------------------------------------------------------------	NM_001011629
	--------------------------------------------------------------------------------------------------------------------------------	NM_001047939
	--------------------------------------------------------------------------------------------------------------------------------	NM_001013793
	--------------------------------------------------------------------------------------------------------------------------------	NM_001094367
cbriggsae	((((.(((.((.((((....((..((((.(((...((((((.....(((((.((((..((.....))...)))).)))))..))))))))).))))..))...)))))).))).))))	0.610 -28.10

cbriggsae

chromosome:chrX:2161596:2161713:-1

Same_strand|Intronic_coding|NM_070961|ergo-1 ## Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Opposite_strand|Intronic_coding|NM_001047939|LOC499407 ## {Repeats: no}

block4406 [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	0.050	no	no	0.35/0.37	19/20/0.25	0.0	0.0	3	0	1	0	23	11	3arm	1	nd	0.42	5	4	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------------------CGUUAUG----------------------------------	4	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------CCGTTATGCTAGTGTTAAT-----------------------	19	3
	-------------------------------------------------------------------CCGTTATGCTAGTGTTAATT----------------------	20	1
cbriggsae	tgttaattaggtttttaagaaccgttacacgtgtaattaagctttagtaattttttgttattagggaCCGTTATGCTAGTGTTAATtgtcttttgtttctttttttgat
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	NM_001087279
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_166414
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001046332
cbriggsae	.(((((..(((.....((((......(((((((((((....((((((((((.....))))))))))...)))))))..))))......)))).....)))....)))))	0.860 -19.40

cbriggsae

chromosome:chrX:4787639:4787747:-1

Opposite_strand|Intronic_non-coding|NM_001087279|fbxl5 ## Same_strand|Intronic_non-coding|NM_166414|Act57B ## {Repeats: no}

block4514 [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	0.156	no	no	0.39/0.39	18/18/0.00	0.0	0.0	1	0	1	0	6	6	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	cactcccggctttagagaaaagaagacacaacgaaatttaaaattagttgtcCAATTGACACTGAAGAACtgagtg
	****************************************************************************
	--------------------------------------------------------------------------------------	NM_001018425
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001081263
cbriggsae	(((((....((((((....((......(((((..............)))))....))....))))))....)))))	0.940 -12.94

cbriggsae

chromosome:chrX:10519930:10520005:-1

Opposite_strand|Intronic_coding|NM_001018425|byr1 ## Same_strand|Intronic_non-coding|NM_001081263|Slc44a5 ## {Repeats: no}

block4876 [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	0.658	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	23	10	3arm	2	nd	0.39	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------UCAUACA---------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------GTCATACAAACCGTCAAG-----------------------	18	1
cbriggsae	gaggccaagaaaagttgtaaagaaagcgtcgacatgtattataaacgccaatattatcatgtagtcggtgaagagcGTCATACAAACCGTCAAGcgctgaaaataaataattgcttc
	*********************************************************************************************************************
	-------------------------------------------------------------------------------------------------------------------------------	NM_007496
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001080396
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007736
	-------------------------------------------------------------------------------------------------------------------------------	NM_001090075
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087789
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001079250
	-------------------------------------------------------------------------------------------------------------------------------	NM_008591
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_030706
cbriggsae	(((((.......((((((......(((((.(((.(((((.....((((.....(((((........)))))...)))).)))))....)))..)))))........)))))))))))	0.580 -18.85

cbriggsae

chromosome:chrX:5706302:5706418:1

Opposite_strand|Intronic_non-coding|NM_007496|Zfhx3 ## Same_strand|Intronic_non-coding|NM_001080396|FAM155A ## Same_strand|Intronic_coding|NM_007736|Col4a5 ## Opposite_strand|Intronic_coding|NM_001090075|MGC69046 ## {Repeats: no}

block5208 [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	0.710	no	no	0.42/0.42	19/19/0.00	0.0	0.0	1	0	1	0	16	24	3arm	1	nd	0.32	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------AAUAAGC---------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------------AAATAAGCAAGAGGCAACG----------------	19	1
cbriggsae	ttttcgctttttagttgaaattgtatgttatgtgttccagacggtgaagagggaaagatctgatggttcaagaagagcgataAAATAAGCAAGAGGCAACGtgatcagtttgaagat
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_203923
cbriggsae	((((((((..(((((((...((((.((((.(((((((..(((.((..(((........))).)).)))......)))).))).)))).))))....)))).)))..)))..))))).	0.650 -19.70

cbriggsae

chromosome:chrX:18626548:18626664:1

Same_strand|Intronic_coding|NM_203923|abcb4 ## {Repeats: no}

block5265 [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	0.336	no	no	0.46/0.46	26/26/0.00	0.0	0.0	1	0	1	0	15	0	5arm	1	nd	0.42	4	1	1	na	na

		reads	miRBase family seed
seed	----------------UAGACGG------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------GTAGACGGCAGTCCTTATTTAACTGG------------------------------------------------	26	1
cbriggsae	agaaatgaacaacatGTAGACGGCAGTCCTTATTTAACTGGtcccatttctcgaatccaccaatgaggccgcctcagtttccaattcta
	*****************************************************************************************
cbriggsae	((((.((...(((.((.((.((((....((((((....(((...............)))..)))))))))).)))))))..)).)))).	0.440 -14.26

cbriggsae

chromosome:chrX:20402451:20402539:1

{Repeats: no}

novel_nonpairedHIGH_bulgeHIGH (43 loci)

block6 [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	0.338	no	no	0.50/0.50	22/22/1.00	0.0	0.0	2	0	1	0	12	0	5arm	3	nd	0.36	4	2	1	na	na

		reads	miRBase family seed
seed	-------------UAUCCCA--------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	------------GTATCCCAAGTGTCTCTTACGG------------------------------------------	22	2
cbriggsae	gcattgggaccaGTATCCCAAGTGTCTCTTACGGttccaccagttttatcggggcgaggctactgagaccaatagc
	****************************************************************************
	--------------------------------------------------------------------------------------	NM_001011629
	--------------------------------------------------------------------------------------	NM_001051257
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_026191
	--------------------------------------------------------------------------------------	NM_067594
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_184109
cbriggsae	(((((((...(((((.((....((((((..((((.....)).))......)))))).)).)))))...))))).))	0.740 -20.30

cbriggsae

chromosome:chrI:417042:417117:-1

Opposite_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## Opposite_strand|Intronic_coding|NM_001051257|Os01g0834700 ## Same_strand|Intronic_non-coding|NM_026191|Dhx40 ## Same_strand|Intronic_coding|NM_184109|Rtl1 ## {Repeats: no}

Page 17

Jump 10 pages forward

Page 70

miR-Intess™

block3272 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block3496 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block4133 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block4348 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block4406 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block4514 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block4876 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block5208 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block5265 [novel_lenNOK_nonpairedHIGH_bulgeHIGH]

block6 [novel_nonpairedHIGH_bulgeHIGH]