miR-Intess™

other hairpins

novel_lenNOK_cloningOK_multiarm_DicerNOK_loopOverlap_randfoldOK (9 loci)

sblock8048 [novel_lenNOK_cloningOK_multiarm_DicerNOK_loopOverlap_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

0.007

no

no

0.38/0.56

18/23/0.29

0.0 0.0 0.0 0.5

0.5 1.7 0.0 0.0

8 3 1 2

0 0 0 0

3 1 1 1

0 0 0 0

0 20 28 0

13 -9 -12 9

5arm 5arm_loop_3arm 5arm_loop_3arm 3arm

1 1 1 2

nd nd nd nd

0.33 0.45 0.44 0.22

5 4 4 1

17

3

-2

-2

		reads	miRBase family seed
seed	-CAUCUAC-----------------------------------------------------------	8	novel
seed	------ACACAGC------------------------------------------------------	3	novel
seed	---------------------GCUAAGC---------------------------------------	3	novel
seed	------------------------------------------------UACAGAG------------	1	novel
seed	-----------------------------AACAGAC-------------------------------	1	novel
seed	-------------------------------------------------ACAGAGG-----------	1	novel
		len	cloning frequencies
			T1S1	T5S1	T5S2
	TCATCTACACAGCTTGAGA------------------------------------------------	19	2	4	-
	-----TACACAGCTTGAGAATGCT-------------------------------------------	19	1	1	1
	TCATCTACACAGCTTGAGAAT----------------------------------------------	21	2	-	-
	--------------------TGCTAAGCTAACAGACTTCTGGG------------------------	23	-	1	-
	--------------------TGCTAAGCTAACAGACTTC----------------------------	19	-	1	-
	------------------------------------------------TACAGAGGCTTGTGTGGAG	19	-	1	-
	-----------------------------------------------GTACAGAGGCTTGTGTGGAG	20	-	1	-
	--------------------TGCTAAGCTAACAGACTTCT---------------------------	20	-	1	-
	----------------------------TAACAGACTTCTGGGGGC---------------------	18	-	1	-
rat	TCATCTACACAGCTTGAGAATgctaagctaacagacttctgggggctgtacagaggcttgtgtggag
	*******************************************************************
rat	...((((((((((((.....((...((((..(((....)))..))))...)).))))).))))))).	0.980 -24.50

rat

chromosome:3:76966048:76966114:1

intergenic

sblock8724 [novel_lenNOK_cloningOK_multiarm_DicerNOK_loopOverlap_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

0.64/0.72

18/25/0.33

0.4 0.0 0.0

0.6 0.0 0.5

7 1 4

0 0 0

5 1 3

0 0 0

43 52 26

-2 -15 5

5arm_loop 5arm_loop_3arm 3arm

1 1 1

nd nd nd

0.26 0.28 0.05

2 5 1

12

7

9

10

		reads	miRBase family seed
seed	--------------------------------------------GGUGCGA-------------------------------------------------------------------	5	novel
seed	-------------------------------------------------------------------------GCUCGCC--------------------------------------	4	novel
seed	---------------------------------------------GUGCGAG------------------------------------------------------------------	1	novel
seed	-----------------------------------------------------CAGGCAG----------------------------------------------------------	1	novel
seed	----------------------------------------------UGCGAGU-----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T3S2	T4S2	T5S1	T5S2
	------------------------------------------------------------------------TGCTCGCCCACCTTCCAC----------------------------	18	-	1	-	-	2	-	-
	-------------------------------------------TGGTGCGAGTCAGGCAGCCC-------------------------------------------------------	20	1	-	-	-	-	-	2
	-------------------------------------------TGGTGCGAGTCAGGCAGCC--------------------------------------------------------	19	-	-	-	1	-	-	1
	---------------------------------------------GTGCGAGTCAGGCAGCCCT------------------------------------------------------	19	-	-	-	-	-	1	-
	--------------------------------------------GGTGCGAGTCAGGCAGCC--------------------------------------------------------	18	-	-	1	-	-	-	-
	------------------------------------------------------------------------TGCTCGCCCACCTTCCACTC--------------------------	20	1	-	-	-	-	-	-
	----------------------------------------------------TCAGGCAGCCCTTGAGGCTCTGCTC-----------------------------------------	25	-	-	-	-	1	-	-
rat	ggagagcgagctgaagagagcgaagcagttcagagggaaggatTGGTGCGAGTCAGGCAGCCCTTGAGGCTCTGCTCGCCCACCTTCCACTCttctctccctctctccctctctcttt
	**********************************************************************************************************************
rat	.(((((.(((..((.(((((.((...((...((((((((((..(((.(((((.(((..((((.....))))))))))))))))))))).)))).)).)).))))))).))).))))).	0.790 -51.80

rat

chromosome:4:163546627:163546744:-1

intergenic ## {Repeats: dust 163546653 163546655 0 class=dust,GA-rich 1 66 -1 class=Low_complexity,GA-rich 44 64 -1 class=Low_complexity,GA-rich 59 66 -1 class=Low_complexity}

sblock11690 [novel_lenNOK_cloningOK_multiarm_DicerNOK_loopOverlap_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

0.36/0.55

18/23/0.35

0.0 0.0 0.0 0.0 0.0

0.0 0.0 0.3 0.0 0.0

1 1 24 10 1

0 0 0 0 0

1 1 3 2 1

0 0 0 0 0

10 16 45 48 16

18 13 -17 1 33

5arm 5arm 5arm_loop_3arm 3arm 3arm

1 1 1 1 2

nd nd nd nd nd

0.35 0.26 0.42 0.63 0.42

3 2 4 8 5

49

3

0

0

		reads	miRBase family seed
seed	----------------------------------------------GGGAAAC-------------------------------------------------------------------	33	novel
seed	------------------------------------------------------GAGCAGG-----------------------------------------------------------	11	novel
seed	---------------------------------------------UGGGAAA--------------------------------------------------------------------	2	novel
seed	-----------AAAGAGA------------------------------------------------------------------------------------------------------	1	novel
seed	--------------------------------------------------------------------------------------AAUGAAG---------------------------	1	novel
seed	-----------------AAACAGU------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	---------------------------------------------TGGGAAACTGAGCAGGAAC--------------------------------------------------------	19	2	-	16
	-----------------------------------------------------TGAGCAGGAACCTAAGAAA------------------------------------------------	19	-	-	10
	---------------------------------------------TGGGAAACTGAGCAGGAACC-------------------------------------------------------	20	-	2	8
	---------------------------------------------TGGGAAACTGAGCAGGAA---------------------------------------------------------	18	1	-	1
	---------------------------------------------TGGGAAACTGAGCAGGAACCT------------------------------------------------------	21	-	-	2
	--------------------------------------------CTGGGAAACTGAGCAGGAAC--------------------------------------------------------	20	-	-	2
	-----------------------------------------------------TGAGCAGGAACCTAAGAAAAAT---------------------------------------------	22	-	1	-
	-------------------------------------------------------------------------------------AAATGAAGGGTTTGTGGGG----------------	19	-	-	1
	----------------GAAACAGTGCCTCATTTCT-------------------------------------------------------------------------------------	19	-	-	1
	----------TAAAGAGAAACAGTGCCTCA------------------------------------------------------------------------------------------	20	-	-	1
	---------------------------------------------TGGGAAACTGAGCAGGAACCTAA----------------------------------------------------	23	-	-	1
rat	ccaggcactttaaagagaaacagtgcctcatttctgtgtggtttcTGGGAAACTGAGCAGGAACCTAAGAAAaatagaaacggagaaatgaagggtttgtgggggctcctggtgtctggg
	************************************************************************************************************************
rat	(((((((((.....(((..((((..((((((((((.((((((((((((....))....)))))))..............))).)))))))).))..)))).....)))..))))))))).	0.950 -41.33

rat

chromosome:8:57739214:57739333:-1

intergenic

novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron (9 loci)

sblock10055 [novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron]

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

0.164

no

no

0.50/0.61

18/22/0.50

0.0 0.2

2.0 1.2

4 6

0 0

3 3

0 0

10 13

2 5

5arm 3arm

1 1

38 1

0.18 0.28

2 2

10

6

1

0

		reads	miRBase family seed
seed	-------------------------------------------------CAUCUGG--------------------------	5	novel
seed	-----------UUGGAGC----------------------------------------------------------------	4	novel
seed	------------------------------------------------ACAUCUG---------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T3S1	T4S1	T4S2	T5S1
	------------------------------------------------ACATCTGGGGCTGTCTCC----------------	18	2	-	-	-	1	-
	----------TTTGGAGCCAGCACTGGAGA----------------------------------------------------	20	-	-	-	1	-	1
	----------TTTGGAGCCAGCACTGGA------------------------------------------------------	18	-	-	-	-	-	1
	----------TTTGGAGCCAGCACTGGAGAGA--------------------------------------------------	22	-	1	-	-	-	-
	------------------------------------------------ACATCTGGGGCTGTCTCCTTA-------------	21	-	-	-	-	1	-
	------------------------------------------------ACATCTGGGGCTGTCTCCT---------------	19	-	-	1	-	-	-
	-----------------------------------------------TACATCTGGGGCTGTCTCCTTA-------------	22	-	-	1	-	-	-
rat	tgatggagtgTTTGGAGCCAGCACTGGAGAGAgtgaagtcatgctttTACATCTGGGGCTGTCTCCTTAggtcttaccacaa
	**********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>	ENSRNOT00000008775 ENSRNOG00000006699 Mlh3
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>	ENSRNOT00000033493 ENSRNOG00000006699 Mlh3
rat	((.(((((.....((((.((((.(((((((((((........))))))...))))).)))).))))......))..))))).	0.780 -22.90

rat

chromosome:6:109293006:109293087:-1

Same_strand|Intronic_coding|ENSRNOT00000008775|ENSRNOG00000006699 ## ENSRNOG00000006699|protein_coding|Mlh3|mutL homolog 3 (E coli) Gene [Source:MGI Symbol;Acc:MGI:1353455]

sblock11414 [novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron]

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

0.020

no

no

0.44/0.58

18/23/0.37

0.2 0.0

0.8 1.5

13 6

0 0

5 3

0 0

6 7

2 2

5arm 3arm

1 3

40 1

0.11 0.10

2 1

19

6

0

0

		reads	miRBase family seed
seed	--------UGCAGGA---------------------------------------------------------------	11	novel
seed	-------------------------------------------------UGACUCU----------------------	6	novel
seed	---------GCAGGAU--------------------------------------------------------------	1	novel
seed	-------UUGCAGG----------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S2	T3S2	T4S1	T5S1
	-------TTGCAGGATAGTTAGGGAG----------------------------------------------------	19	3	-	1	2	1	-
	------------------------------------------------CTGACTCTCTCTGCTCCT------------	18	3	-	-	-	-	-
	-------TTGCAGGATAGTTAGGGAGGC--------------------------------------------------	21	2	-	-	-	-	-
	------------------------------------------------CTGACTCTCTCTGCTCCTGCAGA-------	23	-	-	-	-	1	-
	------------------------------------------------CTGACTCTCTCTGCTCCTG-----------	19	-	1	-	-	-	-
	-------TTGCAGGATAGTTAGGGA-----------------------------------------------------	18	-	-	-	-	-	1
	--------TGCAGGATAGTTAGGGAGGCAG------------------------------------------------	22	-	-	-	-	-	1
	------------------------------------------------CTGACTCTCTCTGCTCCTGCA---------	21	-	1	-	-	-	-
	-------TTGCAGGATAGTTAGGGAGG---------------------------------------------------	20	1	-	-	-	-	-
	------GTTGCAGGATAGTTAGGGAG----------------------------------------------------	20	-	-	-	1	-	-
rat	gtgcccGTTGCAGGATAGTTAGGGAGGCAGaaatttcactctcccattCTGACTCTCTCTGCTCCTGCAGAcagagcc
	******************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>	ENSRNOT00000012378 ENSRNOG00000008897 Gga1
rat	((.....(((((((((((..((((((.(((((..............))))).))))))))).)))))))).....)).	0.970 -25.74

rat

chromosome:7:116847262:116847339:1

Same_strand|Intronic_coding|ENSRNOT00000012378|ENSRNOG00000008897 ## Same_strand|Boundary_coding|ENSRNOT00000012378|ENSRNOG00000008897 ## ENSRNOG00000008897|protein_coding|Gga1|golgi associated, gamma adaptin ear containing, ARF binding protein 1 [Source:RefSeq_peptide;Acc:NP_001011994]

sblock11438 [novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron]

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

0.053

no

no

0.38/0.53

18/22/0.64

0.0 0.1

0.0 1.3

1 31

0 0

1 9

0 0

15 17

10 6

5arm 3arm

1 1

42 0

0.19 0.11

2 2

44

9

-2

0

		reads	miRBase family seed
seed	---------------------------------------------------------CACGGAU-------------------------------	38	novel
seed	----------------------------------------------------------ACGGAUU------------------------------	5	novel
seed	----------------UAGUGGG------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1
	--------------------------------------------------------GCACGGATTGTTTTCCCACTAG-----------------	22	6	5	-	2	2	1	-	2	-
	--------------------------------------------------------GCACGGATTGTTTTCCCAC--------------------	19	2	2	3	1	1	-	1	-	-
	--------------------------------------------------------GCACGGATTGTTTTCCCACT-------------------	20	1	3	-	-	-	-	-	-	-
	--------------------------------------------------------GCACGGATTGTTTTCCCA---------------------	18	2	1	-	-	-	-	-	-	1
	--------------------------------------------------------GCACGGATTGTTTTCCCACTA------------------	21	1	-	-	-	-	1	-	-	-
	---------------------------------------------------------CACGGATTGTTTTCCCACTAG-----------------	21	-	-	1	-	-	-	1	-	-
	---------------------------------------------------------CACGGATTGTTTTCCCACT-------------------	19	-	2	-	-	-	-	-	-	-
	---------------------------------------------------------CACGGATTGTTTTCCCACTA------------------	20	-	-	-	-	1	-	-	-	-
	---------------ATAGTGGGTTAGCCAATTTGT-----------------------------------------------------------	21	1	-	-	-	-	-	-	-	-
rat	ctgccaccccagctcatagtgggttagccaatttgtaacctctcttgtcaagctgaGCACGGATTGTTTTCCCACTAGgagacgccatcttcaga
	***********************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000034998 ENSRNOG00000024743 L3mbtl2
rat	(((.........(((.(((((((..((.((((((((...(((..((....))..))).))))))))))..))))))).)))..........))).	0.920 -25.51

rat

chromosome:7:120019124:120019218:1

Same_strand|Intronic_coding|ENSRNOT00000034998|ENSRNOG00000024743 ## ENSRNOG00000024743|protein_coding|L3mbtl2|l(3)mbt-like 2 [Source:RefSeq_peptide;Acc:NP_001028867]

sblock12381 [novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron]

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

0.021

no

no

0.58/0.70

18/24/0.68

0.0 0.2

0.8 1.6

4 30

0 0

2 5

0 0

10 13

18 23

5arm 3arm

1 1

1 0

0.14 0.22

1 1

34

6

1

0

		reads	miRBase family seed
seed	---------------------------------------------------------------------------------CCGUUUC-----------------------------	24	novel
seed	--------------------------------------------------------------------------------CCCGUUU------------------------------	5	novel
seed	-----------UGGGAGA---------------------------------------------------------------------------------------------------	4	miR-30c
seed	----------------------------------------------------------------------------------CGUUUCU----------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T4S1	T4S2	T5S1	T5S2
	--------------------------------------------------------------------------------CCCGTTTCTGTCTCTCCCCCTA---------------	22	2	1	1	1	1	-
	--------------------------------------------------------------------------------CCCGTTTCTGTCTCTCCCC------------------	19	3	2	-	1	-	-
	--------------------------------------------------------------------------------CCCGTTTCTGTCTCTCCCCCT----------------	21	2	1	-	1	-	-
	--------------------------------------------------------------------------------CCCGTTTCTGTCTCTCCCCC-----------------	20	1	2	-	1	-	-
	-------------------------------------------------------------------------------TCCCGTTTCTGTCTCTCCCCCT----------------	22	1	1	-	1	-	-
	----------GTGGGAGAGCAGTGAGGGG----------------------------------------------------------------------------------------	19	-	-	-	-	-	2
	--------------------------------------------------------------------------------CCCGTTTCTGTCTCTCCC-------------------	18	-	2	-	-	-	-
	----------GTGGGAGAGCAGTGAGGGGCA--------------------------------------------------------------------------------------	21	-	-	-	-	-	1
	----------GTGGGAGAGCAGTGAGGGGC---------------------------------------------------------------------------------------	20	-	1	-	-	-	-
	-------------------------------------------------------------------------------TCCCGTTTCTGTCTCTCCCC------------------	20	-	1	-	-	-	-
	--------------------------------------------------------------------------------CCCGTTTCTGTCTCTCCCCCTAG--------------	23	-	-	1	-	-	-
	--------------------------------------------------------------------------------CCCGTTTCTGTCTCTCCCCCTAGA-------------	24	1	-	-	-	-	-
	-------------------------------------------------------------------------------TCCCGTTTCTGTCTCTCCCCC-----------------	21	1	-	-	-	-	-
	---------------------------------------------------------------------------------CCGTTTCTGTCTCTCCCCC-----------------	19	1	-	-	-	-	-
rat	ctgcgctgagGTGGGAGAGCAGTGAGGGGCAgggctgggcacaggaaggcctcacaccaacctgattatctctctacctTCCCGTTTCTGTCTCTCCCCCTAGAatcttgatgcagc
	*********************************************************************************************************************
	-------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000025335 ENSRNOG00000018741 LOC683524
	>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>	ENSRNOT00000024266 ENSRNOG00000017857 LOC682940
	>>>>>>>>>>>>>>>+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>	ENSRNOT00000061305 ENSRNOG00000017857 LOC682940
rat	(((((..(((((((((((((((.((.(((.(((...(((..((((..((.......))..)))).....)))....))).))).)).))).)))))))......)))))..))))).	0.960 -45.80

rat

chromosome:9:10025878:10025994:1

Opposite_strand|Intronic_coding|ENSRNOT00000025335|ENSRNOG00000018741 ## Same_strand|Boundary_coding|ENSRNOT00000061305|ENSRNOG00000017857 ## ENSRNOG00000018741|protein_coding|LOC683524| ## ENSRNOG00000017857|protein_coding|LOC682940|

sblock2361 [novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron]

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

0.211

no

no

0.60/0.63

19/20/0.40

0.0 0.1

0.0 0.6

1 9

0 0

1 6

0 0

7 27

20 0

5arm 3arm

1 1

65 0

0.26 0.20

3 2

10

6

-16

-15

		reads	miRBase family seed
seed	-----------------------------------------------------------------------CAGUACC----------------------------------------	8	novel
seed	--------UGGGCAU-------------------------------------------------------------------------------------------------------	1	novel
seed	------------------------------------------------------------------------AGUACCU---------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T3S2	T4S2	T5S2
	----------------------------------------------------------------------CCAGTACCTGCTTGCCCAC-----------------------------	19	-	2	1	1	1	-
	----------------------------------------------------------------------CCAGTACCTGCTTGCCCACA----------------------------	20	1	-	-	1	-	1
	-----------------------------------------------------------------------CAGTACCTGCTTGCCCACAG---------------------------	20	-	1	-	-	-	-
	-------TTGGGCATGTGGGCAGCTG--------------------------------------------------------------------------------------------	19	-	1	-	-	-	-
rat	gtccgatTTGGGCATGTGGGCAGCTGggcactcggtgggtatctggccgtcctccctcgtctttctaaccCCAGTACCTGCTTGCCCACAGctgctggaagtgaacaagcagtgggac
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000041563 ENSRNOG00000010370 NP_001102296.1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000058728 ENSRNOG00000010370 NP_001102296.1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000048600 ENSRNOG00000010370 NP_001102296.1
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000013864 ENSRNOG00000010370 NP_001102296.1
rat	((((.(((((..(((...((((((((((((...((..((((.((((........................))))))))..))))))))..))))))....)))..)))...)).))))	0.940 -43.76

rat

chromosome:10:40330040:40330157:-1

Same_strand|Intronic_coding|ENSRNOT00000048600|ENSRNOG00000010370 ## ENSRNOG00000010370|protein_coding|NP_001102296.1|TNFAIP3 interacting protein 1 [Source:RefSeq_peptide;Acc:NP_001102296]

sblock2695 [novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron]

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

0.104

no

no

0.50/0.58

18/23/0.60

0.1 0.0

2.0 1.9

8 7

0 0

4 5

0 0

13 9

2 2

5arm 3arm

1 1

36 0

0.24 0.10

2 1

15

7

0

1

		reads	miRBase family seed
seed	----------------------------------------------------ACUGCUC----------------------	7	novel
seed	--------------CUGGAGG------------------------------------------------------------	7	novel
seed	---------------UGGAGGA-----------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2	T2S1	T2S2	T3S1	T4S2	T5S1
	---------------------------------------------------AACTGCTCCTTCCCTCCACA----------	20	1	1	-	-	-	1	-
	-------------ACTGGAGGATGAGGAAGT--------------------------------------------------	18	-	1	-	-	1	-	-
	-------------ACTGGAGGATGAGGAAGTC-------------------------------------------------	19	-	1	-	-	-	-	1
	---------------------------------------------------AACTGCTCCTTCCCTCCACAG---------	21	1	-	1	-	-	-	-
	--------------CTGGAGGATGAGGAAGTCAGT----------------------------------------------	21	1	-	-	-	-	-	-
	-------------ACTGGAGGATGAGGAAGTCAGTG---------------------------------------------	23	1	-	-	-	-	-	-
	---------------------------------------------------AACTGCTCCTTCCCTCCA------------	18	-	-	-	1	-	-	-
	-------------ACTGGAGGATGAGGAAGTCA------------------------------------------------	20	1	-	-	-	-	-	-
	-------------ACTGGAGGATGAGGAAGTCAG-----------------------------------------------	21	-	1	-	-	-	-	-
	---------------------------------------------------AACTGCTCCTTCCCTCCAC-----------	19	-	1	-	-	-	-	-
rat	ctgagggacttagACTGGAGGATGAGGAAGTCAGTGgctcttgatatttgtAACTGCTCCTTCCCTCCACAGgctctgcag
	*********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>	ENSRNOT00000036278 ENSRNOG00000024535 Zzef1
rat	(((((((.(((....((((((..((((.((.((((.((...........)).)))))))))).)))))).))))))).)))	1.000 -25.90

rat

chromosome:10:59819651:59819731:1

Same_strand|Intronic_coding|ENSRNOT00000036278|ENSRNOG00000024535 ## ENSRNOG00000024535|protein_coding|Zzef1|zinc finger, ZZ-type with EF hand domain 1 Gene [Source:MGI (curated);Acc:Zzef1-001]

sblock2928 [novel_lenNOK_cloningOK_multiarm_DicerNOK_mirtron]

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

0.039

no

no

0.50/0.67

18/21/0.50

0.0 0.0

0.0 0.7

2 6

0 0

1 2

0 0

25 23

17 7

5arm 3arm

1 1

51 0

0.28 0.14

2 2

10

3

-8

-4

		reads	miRBase family seed
seed	--------------------------------------------------------------------------GUGCUGU------------------------------------	8	novel
seed	--------------------------CCCCGUG------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			T1S1	T1S2	T5S1
	-------------------------------------------------------------------------AGTGCTGTCTCGTGTTTCCAG-----------------------	21	-	4	1
	-------------------------GCCCCGTGAAGCAGAGAG--------------------------------------------------------------------------	18	2	-	-
	-------------------------------------------------------------------------AGTGCTGTCTCGTGTTTCC-------------------------	19	-	2	-
	-------------------------------------------------------------------------AGTGCTGTCTCGTGTTTC--------------------------	18	-	1	-
rat	ctcgtgggctcgtggcagagtgcaaGCCCCGTGAAGCAGAGAGacagtgacacacgggttattttgaacttcaAGTGCTGTCTCGTGTTTCCAGggaagaatgctcttctcccatga
	*********************************************************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000052033 ENSRNOG00000002051 Synj1
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>	ENSRNOT00000002812 ENSRNOG00000002051 Synj1
rat	.(((((((.....((.(((((......(((..((((((..((((((((.((....(((((......)))))...)))))))))).))))))..)))......))))).)))))))))	0.740 -40.60

rat

chromosome:11:30950898:30951014:-1

Same_strand|Intronic_coding|ENSRNOT00000052033|ENSRNOG00000002051 ## ENSRNOG00000002051|protein_coding|Synj1|Synaptojanin-1 (EC 3.1.3.36) (Synaptic inositol-1,4,5-trisphosphate 5- phosphatase 1). [Source:UniProtKB/Swiss-Prot;Acc:Q62910]

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