miR-Intess™

other hairpins

novel_lenNOK_cloningHIGH_randfoldOK_nonpairedHIGH_bulgeHIGH (11 loci)

block1057236 [novel_lenNOK_cloningHIGH_randfoldOK_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

0.004

no

no

0.42/0.44

18/19/0.00

0.0

0.0

209

0

10

0

6

29

3arm

1

nd

0.44

6

330

10

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------ACCAAAA----------------	324	novel
seed	-------------------------------------------------------------------------------AACCAAA-----------------	5	novel
seed	-----------------------------------------------------------------------------CAAACCA-------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-------------------------------------------------------------------------------AACCAAAAATGGGAGGGA------	18	27	91	17	21	8	1	69	49	20	21
	------------------------------------------------------------------------------AAACCAAAAATGGGAGGGA------	19	-	2	-	-	-	-	1	1	1	-
	----------------------------------------------------------------------------GCAAACCAAAAATGGGAG---------	18	-	-	-	-	-	-	-	-	1	-
rat	gggattcgggaccatttttgtagctgaggtgcagtataatttctcacacagtgggagcgatacctgaacctttttagcaAACCAAAAATGGGAGGGAgatccc
	*******************************************************************************************************
rat	((((((.....(((((((((..((((((((.((((((...(((((((...)))))))..)))).)).)))))...)))....)))))))))......))))))	1.000 -34.60

rat

chromosome:20:1833509:1833611:-1

intergenic

block1401495 [novel_lenNOK_cloningHIGH_randfoldOK_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

0.009

no

no

0.30/0.33

18/20/0.06

0.1

0.0

28

0

9

0

13

21

3arm

1

nd

0.32

4

53

9

na

na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------------UUGCAAA------------------------	44	novel
seed	-------------------------------------------------------------------------------------UGCAAAU-----------------------	9	novel
		len	cloning frequencies
			T1S1	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-----------------------------------------------------------------------------------TTTGCAAATCCATGCAAAA-------------	19	1	8	1	3	10	1	-	4	2
	-----------------------------------------------------------------------------------TTTGCAAATCCATGCAAA--------------	18	2	1	1	1	2	-	2	-	2
	------------------------------------------------------------------------------------TTGCAAATCCATGCAAAA-------------	18	1	3	-	2	1	-	-	1	1
	-----------------------------------------------------------------------------------TTTGCAAATCCATGCAAAAA------------	20	-	-	-	1	1	-	-	-	1
rat	gagtttaacagtccaaattgtcatggagtcagtgctgctaaggtctggggccggtacaccaggctgcctcattccaaagtagtTTTGCAAATCCATGCAAAAactaaatagcttt
	*******************************************************************************************************************
rat	(((((....(((.....(((.((((((..(((.((((((..((..(((((.((((.......)))))))))..))..)))))).)))....)))))))))..)))....))))).	0.910 -34.30

rat

chromosome:3:114679736:114679850:-1

intergenic

block1796253 [novel_lenNOK_cloningHIGH_randfoldOK_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

0.007

no

no

0.56/0.56

18/18/0.00

0.0

0.0

543

0

10

0

13

23

5arm

1

nd

0.39

4

603

10

na

na

reads

miRBase family seed

seed

--------------UCACAUU-------------------------------------------------------------------------------------------

603

miR-23a/23b

len

cloning frequencies

T1S1

T1S2

T2S1

T2S2

T3S1

T3S2

T4S1

T4S2

T5S1

T5S2

-------------ATCACATTGCCAGGTCCC---------------------------------------------------------------------------------

18

71

51

28

32

59

43

91

120

53

55

rat

acatgtgtcctttATCACATTGCCAGGTCCCtcccacctctgaactcaagctctcttaccagtgcctgagtagccagatcgggcctgcctggcaccctgagacctgacagtg

****************************************************************************************************************

--------------------------------------------------------------------------------------------------------------------------

ENSRNOT00000025173 ENSRNOG00000018608 LOC690574

rat

.(((.((((.....(((...((((((((....(((...((((.(((((.((.((......)).)).)))))...))))..)))...))))))))...))).....)))))))

0.970 -36.90

rat

chromosome:5:158470250:158470361:-1

Opposite_strand|Intronic_coding|ENSRNOT00000025173|ENSRNOG00000018608 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000025000|ENSRNOG00000018608 ## ENSRNOG00000018608|protein_coding|LOC690574|Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial precursor (EC 1.5.1.12) (P5C dehydrogenase) (Aldehyde dehydrogenase family 4 member A1). [Source:UniProtKB/Swiss-Prot;Acc:P0C2X9]

block1931080 [novel_lenNOK_cloningHIGH_randfoldOK_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

0.010

no

no

0.62/0.67

18/22/0.02

0.0

0.0

68

0

10

0

24

11

3arm

1

nd

0.33

4

92

10

na

na

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------GGCUCAA----------------------------------	92	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	----------------------------------------------------------------------------TGGCTCAAGGACCCAGGG------------------------	18	17	5	4	4	6	3	18	19	8	5
	----------------------------------------------------------------------------TGGCTCAAGGACCCAGGGACAG--------------------	22	-	-	-	-	-	-	1	-	-	-
	----------------------------------------------------------------------------TGGCTCAAGGACCCAGGGA-----------------------	19	-	-	-	-	-	-	1	-	-	-
	----------------------------------------------------------------------------TGGCTCAAGGACCCAGGGACA---------------------	21	-	-	-	-	-	-	1	-	-	-
rat	aataaaatcatttaatgtaaaaagtaaaatttggggtagctgagcccggatgtcatcagaggacatgactgcatctTGGCTCAAGGACCCAGGGacaggctttctggaatgggtttgt
	**********************************************************************************************************************
	--------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000005905 ENSRNOG00000004269 Myt1l
rat	.(((((..(((((.......(((((....((((((.....((((((.((((((..(((.......)))..)))))).))))))....)))))).....)))))...)))))..)))))	0.970 -36.20

rat

chromosome:6:47564632:47564749:-1

Opposite_strand|Boundary_non-coding|ENSRNOT00000044310|ENSRNOG00000004269 ## Opposite_strand|Intronic_non-coding|ENSRNOT00000005905|ENSRNOG00000004269 ## ENSRNOG00000004269|protein_coding|Myt1l|Myelin transcription factor 1-like protein (MyT1L protein) (Neural zinc finger factor 1) (NZF-1). [Source:UniProtKB/Swiss-Prot;Acc:P70475]

block2240787 [novel_lenNOK_cloningHIGH_randfoldOK_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

0.003

no

no

0.52/0.56

18/21/0.10

0.0

0.0

34

0

9

0

6

17

5arm

1

nd

0.44

4

59

9

na

na

		reads	miRBase family seed
seed	-------AGCUGCC--------------------------------------------------------------------	59	miR-22
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S2	T4S1	T4S2	T5S1	T5S2
	------AAGCTGCCCTGGTCCTTT----------------------------------------------------------	18	2	3	7	4	4	4	13	2	14
	------AAGCTGCCCTGGTCCTTTCT--------------------------------------------------------	20	-	-	1	-	1	-	1	-	2
	------AAGCTGCCCTGGTCCTTTCTT-------------------------------------------------------	21	-	-	-	-	1	-	-	-	-
rat	gtcaagAAGCTGCCCTGGTCCTTTcttccttccactgtttcatcaggcacagtggaacagtgactcacatgccttcatgaca
	**********************************************************************************
rat	((((.((((..((..(((((....((...(((((((((.((....)).))))))))).)).))).))...)))))).)))).	0.920 -24.90

rat

chromosome:7:98827390:98827471:1

intergenic

block2470745 [novel_lenNOK_cloningHIGH_randfoldOK_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

0.007

no

no

0.39/0.42

18/20/0.01

0.0

0.0

73

0

9

0

18

8

5arm

1

nd

0.33

4

94

9

na

na

		reads	miRBase family seed
seed	-------------------AGUGCAG----------------------------------------------------------------	94	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T4S1	T4S2	T5S1	T5S2
	------------------CAGTGCAGTGTTAAAAGA------------------------------------------------------	18	27	31	3	1	1	15	8	2	1
	------------------CAGTGCAGTGTTAAAAGAC-----------------------------------------------------	19	2	2	-	-	-	-	-	-	-
	------------------CAGTGCAGTGTTAAAAGACA----------------------------------------------------	20	-	-	-	-	-	-	1	-	-
rat	gacatcacagccatgtatCAGTGCAGTGTTAAAAGAcacaatagttctctgttgtgtcaaggacacacactgctcaggtcagggggggtt
	******************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000015705 ENSRNOG00000011803 NP_001034788.1
rat	(((.((...(((.((...(((((..(((((....((((((((((....))))))))))...))))).)))))..)))))...))...)))	0.930 -30.50

rat

chromosome:9:7134448:7134537:-1

Same_strand|Intronic_coding|ENSRNOT00000015705|ENSRNOG00000011803 ## ENSRNOG00000011803|protein_coding|NP_001034788.1|leucine rich repeat and fibronectin type III domain containing 2 [Source:RefSeq_peptide;Acc:NP_001034788]

block2585387 [novel_lenNOK_cloningHIGH_randfoldOK_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

0.004

no

no

0.32/0.43

18/23/0.07

0.0

0.0

23

0

9

0

14

11

5arm

1

nd

0.42

4

57

9

na

na

		reads	miRBase family seed
seed	---------------AAAAACC---------------------------------------------------------------------	57	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	--------------TAAAAACCGGGGTTTTTTT----------------------------------------------------------	19	23	4	3	3	1	1	2	1	4
	--------------TAAAAACCGGGGTTTTTT-----------------------------------------------------------	18	3	-	2	1	2	-	1	-	2
	--------------TAAAAACCGGGGTTTTTTTC---------------------------------------------------------	20	1	-	-	-	-	-	-	-	1
	--------------TAAAAACCGGGGTTTTTTTCC--------------------------------------------------------	21	-	-	1	-	-	-	-	-	-
	--------------TAAAAACCGGGGTTTTTTTCCCC------------------------------------------------------	23	1	-	-	-	-	-	-	-	-
rat	aaagggtggggtctTAAAAACCGGGGTTTTTTTcccctattttcataaggttcaggggggaaacccccccatggtgggaggccattctttt
	*******************************************************************************************
rat	((((((...((((((....(((((((..(((..(((((....((....))...)))))..)))..))))...)))..))))))..))))))	0.800 -35.70

rat

chromosome:9:33663658:33663748:1

intergenic

novel_lenNOK_cloningHIGH_shortStem_randfoldOK (11 loci)

block35444 [novel_lenNOK_cloningHIGH_shortStem_randfoldOK]

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

0.001

no

no

0.60/0.67

18/20/0.00

0.0

0.0

277

0

10

0

3

5

5arm

1

nd

0.22

2

394

10

na

na

		reads	miRBase family seed
seed	----GGCUCAA----------------------------------------------------------------	390	novel
seed	-----GCUCAAC---------------------------------------------------------------	4	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	---TGGCTCAACCTGGCAGGG------------------------------------------------------	18	50	34	20	18	15	15	55	67	44	27
	---TGGCTCAACCTGGCAGGGA-----------------------------------------------------	19	3	3	3	1	1	-	6	17	8	2
	----GGCTCAACCTGGCAGGGA-----------------------------------------------------	18	-	-	-	-	-	1	-	2	-	1
	---TGGCTCAACCTGGCAGGGAA----------------------------------------------------	20	1	-	-	-	-	-	-	-	-	-
rat	cccTGGCTCAACCTGGCAGGGaagaaagaaaaaaaaaaaaaaaaaggttcagaccgtctggcttgaagccagggc
	***************************************************************************
rat	(((((((((((((.(((.((...(((.....................)))...))))).)).)))).))))))).	0.890 -24.20

rat

chromosome:10:76548291:76548365:-1

intergenic

block531590 [novel_lenNOK_cloningHIGH_shortStem_randfoldOK]

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

0.55/0.61

18/21/0.01

0.0

0.0

512

0

10

0

4

4

3arm

2

nd

0.21

3

870

10

na

na

		reads	miRBase family seed
seed	---------------------------------------------GGCAAGA---------------	868	miR-31
seed	--------------------------------------------AGGCAAG----------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	--------------------------------------------AGGCAAGATGCTGGCAGAG----	19	91	33	326	186	8	10	13	42	63	29
	--------------------------------------------AGGCAAGATGCTGGCAGA-----	18	2	2	23	19	1	-	2	1	2	3
	--------------------------------------------AGGCAAGATGCTGGCAGAGT---	20	-	-	7	-	-	-	-	2	1	-
	-------------------------------------------GAGGCAAGATGCTGGCAG------	18	-	-	2	-	-	-	-	-	-	-
	--------------------------------------------AGGCAAGATGCTGGCAGAGTG--	21	-	1	-	1	-	-	-	-	-	-
rat	tcattcacagaaagtacttgctttagttaagagagaaaatacagAGGCAAGATGCTGGCAGAGtgga
	*******************************************************************
rat	((((((.(((...((.((((((((.((.............)).)))))))))).)))...)))))).	1.000 -17.32

rat

chromosome:16:33004985:33005051:-1

intergenic

block665543 [novel_lenNOK_cloningHIGH_shortStem_randfoldOK]

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

0.003

no

no

0.58/0.62

18/21/0.01

0.0

0.0

896

0

10

0

3

16

3arm

1

nd

0.11

1

1067

10

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------GGCUCAG-------------	1066	miR-24
seed	-------------------------------------------------------------UGGCUCA--------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
	-------------------------------------------------------------TGGCTCAGTTCAGCAGCC---	18	150	115	40	52	95	52	125	241	85	85
	-------------------------------------------------------------TGGCTCAGTTCAGCAGCCT--	19	-	4	1	-	2	2	-	4	1	2
	-------------------------------------------------------------TGGCTCAGTTCAGCAGCCTG-	20	-	-	-	2	1	2	-	3	-	1
	------------------------------------------------------------GTGGCTCAGTTCAGCAGC----	18	-	-	-	-	-	-	-	-	-	1
	-------------------------------------------------------------TGGCTCAGTTCAGCAGCCTGC	21	-	-	-	-	-	-	-	1	-	-
rat	caggctagacagctggaagatgagtaaagtgcgggactggctgaggcttgggctctgcatgTGGCTCAGTTCAGCAGCCtgc
	**********************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000059123 ENSRNOG00000013620 Cdc2l5
rat	((((((.....((((((...(((((...((((((..(((((....)))..))..))))))...))))).)))))))))))).	1.000 -37.20

rat

chromosome:17:55079045:55079126:1

Same_strand|Boundary_non-coding|ENSRNOT00000059122|ENSRNOG00000013620 ## Same_strand|Intronic_non-coding|ENSRNOT00000059123|ENSRNOG00000013620 ## ENSRNOG00000013620|protein_coding|Cdc2l5|

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other hairpins:

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