miR-Intess™

other hairpins

novel_lenNOK_5varHIGH_nonpairedHIGH (146 loci)

block1469297 [novel_lenNOK_5varHIGH_nonpairedHIGH]

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

0.112

no

no

0.40/0.43

19/23/0.67

2.0

2.7

3

0

2

0

18

11

3arm

1

nd

0.35

3

3

2

na

na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------GGUAAUG---------------------------------	2	novel
seed	--------------------------------------------------------------------------GAUGGUA------------------------------------	1	novel
		len	cloning frequencies
			T1S2	T5S1
	-------------------------------------------------------------------------TGATGGTAATGGTGAAGAGA------------------------	20	-	1
	----------------------------------------------------------------------------TGGTAATGGTGAAGAGAAGGATG------------------	23	1	-
	----------------------------------------------------------------------------TGGTAATGGTGAAGAGAAG----------------------	19	-	1
rat	cttttcctagttctccagagttctcagcatttccctccttccccactgtccctctgacaatcgggcaaaggaaTGATGGTAATGGTGAAGAGAAGGATGctttgtagaggaggaaga
	*********************************************************************************************************************
rat	.(((((((..((((.(((((((((((.((((.((.((.((((....(((((...........)))))..)))).)).)).)))).))).)).......)))))).)))).)))))))	1.000 -34.21

rat

chromosome:3:76935715:76935831:1

intergenic

block1498967 [novel_lenNOK_5varHIGH_nonpairedHIGH]

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

0.490

no

no

0.44/0.53

18/21/0.33

2.0

2.3

3

0

1

0

18

5

3arm

2

nd

0.32

2

3

1

na

na

		reads	miRBase family seed
seed	----------------------------------------------------------AGCCAGG-------------------------------	2	novel
seed	-------------------------------------------------------GCUAGCC----------------------------------	1	novel
		len	cloning frequencies
			T5S1
	------------------------------------------------------TGCTAGCCAGGCTATTTCC-----------------------	19	1
	---------------------------------------------------------TAGCCAGGCTATTTCCAACTG------------------	21	1
	---------------------------------------------------------TAGCCAGGCTATTTCCAA---------------------	18	1
rat	gcaggagctcatcagtgggagacagcagggagttctgaggttcaattctcctccTGCTAGCCAGGCTATTTCCAACTGcaaatggatgtgcagtgc
	************************************************************************************************
rat	(((...((.(((((((.(((((.(((..(((((...((((.........))))..)))..))..))).))))).))).......)))).))..)))	0.480 -27.21

rat

chromosome:3:140166230:140166325:1

intergenic

block1577916 [novel_lenNOK_5varHIGH_nonpairedHIGH]

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

0.426

no

no

0.53/0.58

19/26/0.20

2.0

0.4

5

0

2

0

21

5

3arm

1

nd

0.37

3

5

2

na

na

		reads	miRBase family seed
seed	------------------------------------------------------------------CAACUGG--------------------------------	2	novel
seed	-----------------------------------------------------------CCCAAAG---------------------------------------	1	novel
seed	----------------------------------------------------------------AGCAACU----------------------------------	1	novel
seed	-----------------------------------------------------------------GCAACUG---------------------------------	1	novel
		len	cloning frequencies
			T1S1	T5S1
	-----------------------------------------------------------------GCAACTGGATGCCCCAAAC---------------------	19	-	2
	---------------------------------------------------------------AAGCAACTGGATGCCCCAA-----------------------	19	-	1
	----------------------------------------------------------CCCCAAAGCAACTGGATGCCCCAAAC---------------------	26	1	-
	----------------------------------------------------------------AGCAACTGGATGCCCCAAAC---------------------	20	-	1
rat	gcagaacccacaggcccccatggaggctaataggtgccaggtaaagagagacccttgtCCCCAAAGCAACTGGATGCCCCAAACgcgggaggctctggctctagc
	*********************************************************************************************************
rat	(((((..(((..(((((((.(((.(((...(((.(((..((....(((.....)))....))...))).)))...)))))).....))).)))).))).))).))	0.950 -31.70

rat

chromosome:4:122191549:122191653:-1

intergenic

block1767091 [novel_lenNOK_5varHIGH_nonpairedHIGH]

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

0.066

no

no

0.38/0.42

19/21/0.67

1.7

1.0

3

0

1

0

8

17

3arm

1

nd

0.33

3

3

1

na

na

		reads	miRBase family seed
seed	-----------------------------------------------------------------GACAUAA------------------------	2	novel
seed	----------------------------------------------------------------------AACAGUC-------------------	1	miR-132/212
		len	cloning frequencies
			T5S1
	----------------------------------------------------------------TGACATAACAGTCCAAGTTGA-----------	21	2
	---------------------------------------------------------------------TAACAGTCCAAGTTGAAGG--------	19	1
rat	cctaaacccttgaatggctccaaatgttgtgacaaagcccattagcaatcggtattttgtctgtTGACATAACAGTCCAAGTTGAAGGggcaagga
	************************************************************************************************
rat	(((...(((((.(((((((....((((((.(((((((((.((.....)).)))..))))))...))))))...))))...))).)))))...))).	0.990 -25.10

rat

chromosome:5:114557970:114558065:-1

intergenic

block1780559 [novel_lenNOK_5varHIGH_nonpairedHIGH]

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

0.58/0.63

19/26/0.00

3.5

0.0

2

0

2

0

7

25

5arm

1

16

0.31

3

2

2

na

na

		reads	miRBase family seed
seed	---------------UGUGACC----------------------------------------------------------------------------------------------	1	novel
seed	--------GGAGUUC-----------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T3S1
	-------AGGAGTTCTGTGACCTTCCTGACCCC-----------------------------------------------------------------------------------	26	1	-
	--------------CTGTGACCTTCCTGACCCC-----------------------------------------------------------------------------------	19	-	1
rat	ggcggggAGGAGTTCTGTGACCTTCCTGACCCCgacccctgatctctagctacagttgctgacttataactgggctccagacctgggtgcagcattgggccgagctctgatccgtc
	********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000032624 ENSRNOG00000028659 RGD1308616_predicted
	++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000032636 ENSRNOG00000028659 RGD1308616_predicted
rat	((((((..(((((((.((..((...(((..((((....(((......((((.((((((........)))))))))).)))...))))..)))....)))).)))))))..))))))	0.410 -38.70

rat

chromosome:5:138852959:138853074:-1

Same_strand|Intronic_coding|ENSRNOT00000032636|ENSRNOG00000028659 ## ENSRNOG00000028659|protein_coding|RGD1308616_predicted|

novel_Multihit_bulgeHIGH (144 loci)

block901 [novel_Multihit_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

0.030

no

no

0.57/0.57

21/21/1.00

0.0

0.0

1

0

1

0

28

5

5arm

18

nd

0.29

4

1

1

na

na

		reads	miRBase family seed
seed	-----------------------------GGCUGGU----------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	----------------------------AGGCTGGTCCCAAGATGGAGT---------------------------------------------------------------------	21	1
rat	ggttcagctataggtcctcttaagatggAGGCTGGTCCCAAGATGGAGTaggttttcctctcactttgactttccatgctgcccacataccagtttctaggggactaattgctctgcc
	**********************************************************************************************************************
rat	(((..(((.((.((((((((......((((((((((....(((((((..(((((.............)))))))))).))........)))))))))))))))))).)).)))..)))	0.450 -36.82

rat

chromosome:10:1651844:1651961:-1

intergenic

block353959 [novel_Multihit_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

0.245

no

no

0.55/0.55

20/20/1.00

0.0

0.0

1

0

1

0

8

7

3arm

15

nd

0.30

4

1

1

na

na

		reads	miRBase family seed
seed	------------------------------------------------UCGUGCA--------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------------------------------ATCGTGCAGGCAGAATCACC--------	20	1
rat	gttcgcgacgtggcgcctgcgaagagctcgcctccaggaaggaggacATCGTGCAGGCAGAATCACCtctgggcc
	***************************************************************************
rat	(((((.((.((((.(((((((..((.....(((((.....)))))...)).)))))))....)))).))))))).	1.000 -28.90

rat

chromosome:14:49309485:49309559:-1

intergenic

block354079 [novel_Multihit_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

0.114

no

no

0.43/0.43

21/21/1.00

0.0

0.0

1

0

1

0

9

21

5arm

25

nd

0.29

4

1

1

na

na

		reads	miRBase family seed
seed	----------CUCCUUU------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	---------GCTCCTTTTGCAGAATAGACT-----------------------------------------------------------------------------------	21	1
rat	tcttttgctGCTCCTTTTGCAGAATAGACTtatagcctgtggcctgccttggagacatagtagacaagcagttagtgatggtaacaatcttttcgagaggagtggaagtaggt
	*****************************************************************************************************************
	---------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000043791 ENSRNOG00000032207 LOC690700
rat	(((....((((((((((((.(((....(((..(((.((((...((((..((....))..))))....))))))).....))).....)))...))))))))))))....))).	0.480 -31.90

rat

chromosome:14:49400031:49400143:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000050021|ENSRNOG00000032207 ## Opposite_strand|Intronic_coding|ENSRNOT00000043791|ENSRNOG00000032207 ## ENSRNOG00000032207|protein_coding|LOC690700|LOC501224 protein. [Source:UniProtKB/TrEMBL;Acc:Q0P5Q7]

block380582 [novel_Multihit_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

0.430

no

no

0.52/0.55

22/23/1.00

0.7

1.3

3

0

2

0

24

5

3arm

29

nd

0.30

4

3

2

na

na

		reads	miRBase family seed
seed	---------------------------------------------------------------------ACCACAU---------------------------------------	2	novel
seed	--------------------------------------------------------------------GACCACA----------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T4S2
	--------------------------------------------------------------------GACCACATGGTTAGCATGACCTC------------------------	23	1	1
	-------------------------------------------------------------------GGACCACATGGTTAGCATGACC--------------------------	22	1	-
rat	catcagagtgttattaggccaacctgcggctctggggtcataccaggtttaacaaagctcaatgtgtGGACCACATGGTTAGCATGACCTCccttggttctactgtcctcttgtg
	*******************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042632 ENSRNOG00000033121 LOC501237
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000039905 ENSRNOG00000033121 LOC501237
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040779 ENSRNOG00000033121 LOC501237
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000049208 ENSRNOG00000033121 LOC501237
	-----------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000044993 ENSRNOG00000026588 LOC680812
rat	(((.((((...((.((((((((.....((....(((((((((((((((((((((........))).))))))...))))....))))))))))))))).))).))..)))).)))	0.410 -28.90

rat

chromosome:14:4426321:4426435:1

Same_strand|Intronic_non-coding|ENSRNOT00000042632|ENSRNOG00000033121 ## Same_strand|Boundary_non-coding|ENSRNOT00000061428|ENSRNOG00000033121 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000061382|ENSRNOG00000026588 ## Same_strand|Intronic_coding|ENSRNOT00000049208|ENSRNOG00000033121 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000044993|ENSRNOG00000026588 ## ENSRNOG00000033121|protein_coding|LOC501237| ## ENSRNOG00000026588|protein_coding|LOC680812|similar to RIKEN cDNA 1700081O22 (LOC363337), mRNA [Source:RefSeq_dna;Acc:NM_001014221]

block380769 [novel_Multihit_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

0.430

no

no

0.52/0.55

22/23/1.00

0.7

1.3

3

0

2

0

24

5

3arm

29

nd

0.30

4

3

2

na

na

		reads	miRBase family seed
seed	---------------------------------------------------------------------ACCACAU---------------------------------------	2	novel
seed	--------------------------------------------------------------------GACCACA----------------------------------------	1	novel
		len	cloning frequencies
			T2S1	T4S2
	--------------------------------------------------------------------GACCACATGGTTAGCATGACCTC------------------------	23	1	1
	-------------------------------------------------------------------GGACCACATGGTTAGCATGACC--------------------------	22	1	-
rat	catcagagtgttattaggccaacctgcggctctggggtcataccaggtttaacaaagctcaatgtgtGGACCACATGGTTAGCATGACCTCccttggttctactgtcctcttgtg
	*******************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000042632 ENSRNOG00000033121 LOC501237
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000039905 ENSRNOG00000033121 LOC501237
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000040779 ENSRNOG00000033121 LOC501237
	-----------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000044993 ENSRNOG00000026588 LOC680812
	-----------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000061378 ENSRNOG00000026588 LOC680812
	-----------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000061377 ENSRNOG00000039950
rat	(((.((((...((.((((((((.....((....(((((((((((((((((((((........))).))))))...))))....))))))))))))))).))).))..)))).)))	0.410 -28.90

rat

chromosome:14:4579046:4579160:1

Same_strand|Intronic_non-coding|ENSRNOT00000042632|ENSRNOG00000033121 ## Same_strand|Boundary_non-coding|ENSRNOT00000061428|ENSRNOG00000033121 ## Opposite_strand|Intronic_coding|ENSRNOT00000061377|ENSRNOG00000039950 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000061382|ENSRNOG00000026588 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000044993|ENSRNOG00000026588 ## ENSRNOG00000033121|protein_coding|LOC501237| ## ENSRNOG00000039950|protein_coding|| ## ENSRNOG00000026588|protein_coding|LOC680812|similar to RIKEN cDNA 1700081O22 (LOC363337), mRNA [Source:RefSeq_dna;Acc:NM_001014221]

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other hairpins:

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