miR-Intess™

other hairpins

novel_cloningOK_loopOverlap_nonpairedHIGH_bulgeHIGH (32 loci)

block1767097 [novel_cloningOK_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

0.488

no

no

0.36/0.42

18/22/0.82

0.0

0.6

13

0

3

0

27

-8

5arm_loop_3arm

1

nd

0.50

5

17

3

na

na

		reads	miRBase family seed
seed	----------------------------UCAGCAA-----------------------------------------------------	14	novel
seed	-----------------------------CAGCAAU----------------------------------------------------	2	novel
seed	-------------------------CCUUCAG--------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T2S2	T5S1
	---------------------------TTCAGCAATGTATTGTCCGA-----------------------------------------	20	-	-	9
	---------------------------TTCAGCAATGTATTGTCCGAAT---------------------------------------	22	-	-	4
	----------------------------TCAGCAATGTATTGTCCGA-----------------------------------------	19	-	1	1
	------------------------TCCTTCAGCAATGTATTGTC--------------------------------------------	20	-	-	1
	---------------------------TTCAGCAATGTATTGTCC-------------------------------------------	18	1	-	-
rat	tgttcagggtccactgggagcttgtccTTCAGCAATGTATTGTCCGAATgctagcacacttgcatactcatcaagacctgtctgggca
	****************************************************************************************
rat	.((((((((((...((((((..(((......((...(((((.....)))))..))......)))..))).))).))))...)))))).	0.500 -20.90

rat

chromosome:5:114558101:114558188:-1

intergenic

novel_lenNOK_5varHIGH_loopOverlap_bulgeHIGH (32 loci)

block370558 [novel_lenNOK_5varHIGH_loopOverlap_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

0.11/0.16

19/19/0.00

1.5

1.5

2

0

2

0

36

-1

5arm_loop

1

nd

0.26

4

2

2

na

na

		reads	miRBase family seed
seed	----------------------------------------GAAUAUU---------------------------------------------------------------------	1	novel
seed	-------------------------------------UUGGAAU------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2	T3S1
	------------------------------------TTTGGAATATTTAAAAATT-------------------------------------------------------------	19	-	1
	---------------------------------------GGAATATTTAAAAATTTTG----------------------------------------------------------	19	1	-
rat	gaaaacatgtgctactgggtgtctatagaagagagcTTTGGAATATTTAAAAATTTTGtttgaaagtatggatattttgtgttttagccactgagatgctgggctcacatatttct
	********************************************************************************************************************
rat	((((..(((((...((.(((((((.(((...(((((..(((((((((((....((((....))))...))))))))))).))))).....)))))))))).))..))))).)))).	0.820 -24.20

rat

chromosome:14:92657803:92657918:-1

intergenic

block706950 [novel_lenNOK_5varHIGH_loopOverlap_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

0.44/0.53

18/19/0.00

1.3

0.7

3

0

3

0

8

-3

3arm

1

nd

0.28

4

3

3

na

na

		reads	miRBase family seed
seed	-------------------------GGAAGGU------------------	2	novel
seed	-----------------------CGGGAAG--------------------	1	novel
		len	cloning frequencies
			T3S2	T5S1	T5S2
	------------------------GGGAAGGTTAATGCACTA--------	18	-	1	1
	----------------------CCGGGAAGGTTAATGCACT---------	19	1	-	-
rat	tccattttgttagttgacctccCCGGGAAGGTTAATGCACTAaaatctgg
	**************************************************
rat	.((((((((...((((((((((...))).)))))))....)))))..)))	1.000 -10.80

rat

chromosome:18:50556163:50556212:-1

intergenic

block881535 [novel_lenNOK_5varHIGH_loopOverlap_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

0.46/0.55

22/26/0.50

2.0

0.0

2

0

1

0

28

-5

3arm

1

nd

0.27

4

2

1

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------AAAUGCA----------------------------------------------	1	novel
seed	------------------------------------------------------------GCAAUCG------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	-----------------------------------------------------------TGCAATCGGTTCAGAGCCCTCT----------------------------	22	1
	-------------------------------------------------------TAAATGCAATCGGTTCAGAGCCCTCT----------------------------	26	1
rat	tcaagtcaggttgcttctattgagtgtcaagggtaagacatgctttgaagtttgcTAAATGCAATCGGTTCAGAGCCCTCTatcaacatagtgggaaatctccacttga
	*************************************************************************************************************
	-----------------------------------------------------------------------------------------------------------------------	ENSRNOT00000016427 ENSRNOG00000012031 St8sia2
rat	((((((.(((((..(((((((..((((....(((.(((...((((((((..((((.....))))....))))))))..)))))).))))))))))))))))..))))))	0.530 -28.00

rat

chromosome:1:129021373:129021481:-1

Opposite_strand|Intronic_coding|ENSRNOT00000016427|ENSRNOG00000012031 ## ENSRNOG00000012031|protein_coding|St8sia2|Alpha-2,8-sialyltransferase 8B (EC 2.4.99.-) (ST8Sia II) (Sialyltransferase X) (STX). [Source:UniProtKB/Swiss-Prot;Acc:Q07977]

block997898 [novel_lenNOK_5varHIGH_loopOverlap_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

0.631

no

no

0.32/0.38

19/24/0.25

1.5

0.2

4

0

1

0

23

-18

5arm_loop_3arm

1

nd

0.29

4

4

1

na

na

		reads	miRBase family seed
seed	---------------------------------------ACUGAAU----------------------------------	3	novel
seed	---------------------------------GGUUCUA----------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	--------------------------------------TACTGAATCATTAGGGAAA-----------------------	19	3
	--------------------------------TGGTTCTACTGAATCATTAGGGAA------------------------	24	1
rat	ggcaaagagaggatatgaggagagtcttacaaTGGTTCTACTGAATCATTAGGGAAAtatcaggtagtacttacatgacc
	********************************************************************************
rat	((((....(((..(((...((...((((..((((((((....)))))))).))))....))..)))...)))...)).))	0.650 -12.80

rat

chromosome:1:128274174:128274253:1

intergenic

block1050448 [novel_lenNOK_5varHIGH_loopOverlap_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

0.145

no

no

0.53/0.56

18/19/0.00

1.5

1.0

2

0

2

0

14

-1

5arm_loop

1

nd

0.26

4

2

2

na

na

		reads	miRBase family seed
seed	---------------AGGUCCC---------------------------------------------------------	1	novel
seed	------------------UCCCUUA------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T4S2
	-----------------GTCCCTTAGCAAGAACCC--------------------------------------------	18	-	1
	--------------CAGGTCCCTTAGCAAGAAC----------------------------------------------	19	1	-
rat	ttttctggtttcacCAGGTCCCTTAGCAAGAACCCagggtgtagaaacggcttaatggagggacccaggtcccaggagg
	*******************************************************************************
rat	.(((((((....(((.(((((((((((....(((...))).........))).....))))))))..))).))))))).	0.820 -25.22

rat

chromosome:1:252472654:252472732:1

intergenic

block1209430 [novel_lenNOK_5varHIGH_loopOverlap_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

0.093

no

no

0.37/0.55

18/22/0.62

7.4

7.4

8

0

4

0

13

-1

5arm_loop

1

nd

0.21

4

8

4

na

na

		reads	miRBase family seed
seed	--------------UCAGAGC---------------------------------------------------------------------------------------	2	novel
seed	----------------AGAGCAG-------------------------------------------------------------------------------------	1	novel
seed	-----------------------------ACUUUUC------------------------------------------------------------------------	1	novel
seed	------------------------------CUUUUCA-----------------------------------------------------------------------	1	novel
seed	-----------------------AGCAGGA------------------------------------------------------------------------------	1	novel
seed	----------------------------GACUUUU-------------------------------------------------------------------------	1	novel
seed	-----------------GAGCAGA------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S1	T3S2	T4S1	T5S1
	-----------------------------ACTTTTCACAGAACACATGG-----------------------------------------------------------	20	1	-	-	-
	----------------------GAGCAGGACTTTTCACAGAAC-----------------------------------------------------------------	21	-	-	-	1
	-------------GTCAGAGCAGAGCAGGACTTT--------------------------------------------------------------------------	21	-	1	-	-
	---------------------------GGACTTTTCACAGAACAC---------------------------------------------------------------	18	1	-	-	-
	-------------GTCAGAGCAGAGCAGGACTT---------------------------------------------------------------------------	20	-	-	1	-
	----------------------------GACTTTTCACAGAACACAT-------------------------------------------------------------	19	1	-	-	-
	---------------CAGAGCAGAGCAGGACTTT--------------------------------------------------------------------------	19	1	-	-	-
	----------------AGAGCAGAGCAGGACTTTTCAC----------------------------------------------------------------------	22	1	-	-	-
rat	gtacttttttctgGTCAGAGCAGAGCAGGACTTTTCACAGAACACATGGgccatgttgatagtgagttcttataacctgttttgtttctgctcagcttccgctgtata
	************************************************************************************************************
	----------------------------------------------------------------------------------------------------------------------	ENSRNOT00000021288 ENSRNOG00000015788 Adora3
rat	((((......(((..((((((((((((((....(((((.....(((((...))))).....))))).........))))))))))).)))..)))........)))).	0.720 -27.76

rat

chromosome:2:201144349:201144456:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000021236|ENSRNOG00000015788 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000021288|ENSRNOG00000015788 ## ENSRNOG00000015788|protein_coding|Adora3|Adenosine A3 receptor (TGPCR1). [Source:UniProtKB/Swiss-Prot;Acc:P28647]

block1258467 [novel_lenNOK_5varHIGH_loopOverlap_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

0.131

no

no

0.44/0.53

18/19/0.00

0.0 1.7

0.0 2.0

1 3

0 0

1 3

0 0

12 4

-6 -2

3arm_loop 3arm

1 1

nd nd

0.44 0.28

5 4

4

4

na

na

		reads	miRBase family seed
seed	------------------------------------GAGCAAA---------------	1	novel
seed	-----------------------------------AGAGCAA----------------	1	novel
seed	---------------------------------CUAGAGC------------------	1	novel
seed	-----------------------------CUAACUA----------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T4S2	T5S1
	-----------------------------------AGAGCAAAGAGAGGGGAAG----	19	-	-	-	1
	----------------------------CCTAACTAGAGCAAAGAG------------	18	-	1	-	-
	--------------------------------ACTAGAGCAAAGAGAGGG--------	18	-	-	1	-
	----------------------------------TAGAGCAAAGAGAGGGGA------	18	1	-	-	-
rat	gtgtcagcctgtggctttgtggatctgcCCTAACTAGAGCAAAGAGAGGGGAAGacgc
	**********************************************************
rat	(((((..(((....((((((...((((.......))))))))))....)))..)))))	0.960 -15.70

rat

chromosome:2:52452041:52452098:1

intergenic

block1283685 [novel_lenNOK_5varHIGH_loopOverlap_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

0.506

no

no

0.50/0.53

18/19/0.00

1.5

1.0

2

0

1

0

16

-5

5arm_loop_3arm

1

5

0.28

4

2

1

na

na

		reads	miRBase family seed
seed	-----------------UGACUUG--------------------------------------------------	1	novel
seed	--------------------CUUGCUG-----------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------GTGACTTGCTGGTGACTGA---------------------------------------	19	1
	-------------------ACTTGCTGGTGACTGATG-------------------------------------	18	1
rat	ggcggaagcggagtgaGTGACTTGCTGGTGACTGATGtcgtaaccagggggcgagtgagggctgcgacacgtcc
	**************************************************************************
	>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000012759 ENSRNOG00000009491 NP_001101132.1
	...>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000058936 ENSRNOG00000009491 NP_001101132.1
rat	((((...((((..((..((.(((.((((((((....)))...))))).)))))..))....))))....)))).	0.910 -23.10

rat

chromosome:2:116827562:116827635:1

Same_strand|Boundary_non-coding|ENSRNOT00000012759|ENSRNOG00000009491 ## Same_strand|Intronic_coding|ENSRNOT00000058936|ENSRNOG00000009491 ## ENSRNOG00000009491|protein_coding|NP_001101132.1|polyhomeotic like 3 [Source:RefSeq_peptide;Acc:NP_001101132]

block1351446 [novel_lenNOK_5varHIGH_loopOverlap_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

0.144

no

no

0.65/0.67

18/21/0.40

2.0

3.0

5

0

3

0

36

-2

5arm_loop

1

nd

0.28

5

5

3

na

na

		reads	miRBase family seed
seed	-------------------------------------AGGACAG------------------------------------------------------------------------	2	novel
seed	---------------------------------------GACAGGG----------------------------------------------------------------------	1	novel
seed	------------------------------------------AGGGGUU-------------------------------------------------------------------	1	novel
seed	----------------------------------------ACAGGGG---------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T4S1	T5S1
	------------------------------------GAGGACAGGGGTTGAGCC--------------------------------------------------------------	18	-	2	-
	-----------------------------------------CAGGGGTTGAGCCTCACC---------------------------------------------------------	18	-	1	-
	--------------------------------------GGACAGGGGTTGAGCCTCACC---------------------------------------------------------	21	-	-	1
	---------------------------------------GACAGGGGTTGAGCCTCACC---------------------------------------------------------	20	1	-	-
rat	ttgtttggttctgagtcaatcacagtgaagaaagcaGAGGACAGGGGTTGAGCCTCACCtgctggggcatctgacttaaagctctgagtaaaacaattagctctgaggaaaacaaa
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000017029 ENSRNOG00000012761 RGD1303144
rat	((((((..(((.(((..(((....((........(((((.....(((((((((((((.....)))))).)).)))))....)))))......)).)))..))).)))..)))))).	0.620 -29.84

rat

chromosome:3:7757968:7758083:-1

Opposite_strand|Intronic_coding|ENSRNOT00000017029|ENSRNOG00000012761 ## ENSRNOG00000012761|protein_coding|RGD1303144|Putative adenylate kinase-like protein C9orf98 homolog (EC 2.7.4.3). [Source:UniProtKB/Swiss-Prot;Acc:Q68FP8]

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other hairpins:

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