miR-Intess™

other hairpins

novel_Multihit_shortStem (15 loci)

block4568 [novel_Multihit_shortStem]

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

0.288

no

no

0.50/0.50

22/22/1.00

0.0

0.0

1

0

1

0

1

37

5arm

23

nd

0.27

3

1

1

na

na

		reads	miRBase family seed
seed	--UUGGCGA-------------------------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-GTTGGCGAGTCTTCCTTCTGTT-----------------------------------------------------------------------------------------------	22	1
cbriggsae	tGTTGGCGAGTCTTCCTTCTGTTacacccagttgaaacattgctccagccgatttctgagccaatttctgaccaaaatggataatctttgaacggggaagcttgggaactacgtcggc
	**********************************************************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_003107
	--------------------------------------------------------------------------------------------------------------------------------	NM_177736
	--------------------------------------------------------------------------------------------------------------------------------	NM_133381
	--------------------------------------------------------------------------------------------------------------------------------	NM_001110160
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_011438
cbriggsae	.((((((((((..((((...(((...(((.(((.(((.((((.((((.......((.(((.....))).))......)))))))).))).))))))..)))..))))))).)))))))	0.800 -30.52

cbriggsae

chromosome:chrX:13680178:13680295:-1

Same_strand|Intronic_non-coding|NM_003107|SOX4 ## Opposite_strand|Intronic_non-coding|NM_177736|Lrrc61 ## {SimpF: trf}

block5225 [novel_Multihit_shortStem]

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

0.322

no

no

0.55/0.55

22/22/1.00

0.0

0.0

1

0

1

0

3

17

5arm

15

nd

0.18

2

1

1

na

na

		reads	miRBase family seed
seed	----UUUCGAG----------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	---GTTTCGAGTGTGTGTGCGCCTT--------------------------------------------------------	22	1
cbriggsae	cccGTTTCGAGTGTGTGTGCGCCTTtaaccccttcgtggcgagacctcaacgatagggcgcgcttgcacgaagggagagga
	*********************************************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007734
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_134696
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_203905
	-------------------------------------------------------------------------------------------	NM_001065436
cbriggsae	((..((((..(((((.(((((((((........((((...((....)).)))).))))))))).)))))...))))..)).	0.580 -28.20

cbriggsae

chromosome:chrX:19290866:19290946:1

Same_strand|Intronic_non-coding|NM_007734|Col4a3 ## Same_strand|Intronic_coding|NM_134696|CG2839 ## Opposite_strand|Intronic_non-coding|NM_001065436|Os07g0150700 ## {Repeats: no}

block5240 [novel_Multihit_shortStem]

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

0.249

no

no

0.55/0.55

20/20/1.00

0.0

0.0

1

0

1

0

4

22

3arm

49

nd

0.30

2

1

1

na

na

		reads	miRBase family seed
seed	-------------------------------------------------------------------CGUUCGU----------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------------------------GCGTTCGTGGTGTAATGGTC----	20	1
cbriggsae	gcagattacaaagcctcacgaaacacgattcatttatgtttatggacgtgcctgatagacttgtgcGCGTTCGTGGTGTAATGGTCagca
	******************************************************************************************
	----------------------------------------------------------------------------------------------------	NM_001031326
	----------------------------------------------------------------------------------------------------	NM_077935
cbriggsae	((.(((((....((.(((((((.(((((.(((..((((((....))))))..))).....)))))....))))))).))..))))).)).	0.420 -21.80

cbriggsae

chromosome:chrX:19751804:19751893:1

Opposite_strand|Intronic_non-coding|NM_001031326|CLK2 ## Opposite_strand|Intronic_coding|NM_077935|C31E10.8 ## {Repeats: no}

novel_cloningOK_Multihit_loopOverlap_nonpairedHIGH_bulgeHIGH (15 loci)

block153 [novel_cloningOK_Multihit_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

0.494

no

no

0.50/0.63

21/27/0.90

0.0

0.3

7

0

1

0

22

-8

3arm

20

nd

0.52

7

10

1

na

na

		reads	miRBase family seed
seed	-----------------------------------------------CCUUAGG-------------------------------------	7	novel
seed	---------------------------------------------------AGGUCGC---------------------------------	1	novel
seed	-------------------------------------------------------CGCUGGU-----------------------------	1	novel
seed	--------------------------------------------------UAGGUCG----------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------TCCTTAGGTCGCTGGTTCGAATC----------------------	23	5
	----------------------------------------------TCCTTAGGTCGCTGGTTCGAAT-----------------------	22	2
	------------------------------------------------------TCGCTGGTTCGAATCCGGCTCGACGGA----------	27	1
	-------------------------------------------------TTAGGTCGCTGGTTCGAATCCG--------------------	22	1
	--------------------------------------------------TAGGTCGCTGGTTCGAATCCG--------------------	21	1
cbriggsae	tcgatagctcagttggtagagcggaggactgtagagtcagtgggtaTCCTTAGGTCGCTGGTTCGAATCcggctcgacggattgccttttg
	*******************************************************************************************
	-----------------------------------------------------------------------------------------------------	NM_001087279
	-----------------------------------------------------------------------------------------------------	NM_001099171
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_176035
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205985
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205986
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_102365
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001084127
cbriggsae	.(((.((..(((((.((.((((...(((.....((..((((((...........))))))..))...))).)))).)).))))).)).)))	0.620 -25.60

cbriggsae

chromosome:chrI:7981395:7981485:-1

Opposite_strand|Intronic_non-coding|NM_001087279|fbxl5 ## Same_strand|Intronic_coding|NM_176035|nAcRalpha-34E ## {Repeats: no}

block1873 [novel_cloningOK_Multihit_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

0.166

no

no

0.50/0.63

21/27/0.90

0.0

0.3

7

0

1

0

15

-8

3arm

20

nd

0.52

7

10

1

na

na

		reads	miRBase family seed
seed	-------------------------------------CCUUAGG------------------------------	7	novel
seed	---------------------------------------------CGCUGGU----------------------	1	novel
seed	-----------------------------------------AGGUCGC--------------------------	1	novel
seed	----------------------------------------UAGGUCG---------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------TCCTTAGGTCGCTGGTTCGAATC---------------	23	5
	------------------------------------TCCTTAGGTCGCTGGTTCGAAT----------------	22	2
	----------------------------------------TAGGTCGCTGGTTCGAATCCG-------------	21	1
	---------------------------------------TTAGGTCGCTGGTTCGAATCCG-------------	22	1
	--------------------------------------------TCGCTGGTTCGAATCCGGCTCGACGGA---	27	1
cbriggsae	agttggtagagcggaggactgtagagtcagtgggtaTCCTTAGGTCGCTGGTTCGAATCcggctcgacggattt
	**************************************************************************
	------------------------------------------------------------------------------------	NM_001033345
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_069815
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027699
cbriggsae	((((.((.((((...(((.....((..((((((...........))))))..))...))).)))).)).)))).	0.990 -21.90

cbriggsae

chromosome:chrIII_random:265766:265839:1

Opposite_strand|Intronic_coding|NM_001033345|Gm216 ## Same_strand|Intronic_coding|NM_069815|T22B3.3 ## {Repeats: no}

block1885 [novel_cloningOK_Multihit_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

0.166

no

no

0.50/0.63

21/27/0.90

0.0

0.3

7

0

1

0

15

-8

3arm

20

nd

0.52

7

10

1

na

na

		reads	miRBase family seed
seed	-------------------------------------CCUUAGG------------------------------	7	novel
seed	---------------------------------------------CGCUGGU----------------------	1	novel
seed	-----------------------------------------AGGUCGC--------------------------	1	novel
seed	----------------------------------------UAGGUCG---------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------TCCTTAGGTCGCTGGTTCGAATC---------------	23	5
	------------------------------------TCCTTAGGTCGCTGGTTCGAAT----------------	22	2
	----------------------------------------TAGGTCGCTGGTTCGAATCCG-------------	21	1
	---------------------------------------TTAGGTCGCTGGTTCGAATCCG-------------	22	1
	--------------------------------------------TCGCTGGTTCGAATCCGGCTCGACGGA---	27	1
cbriggsae	agttggtagagcggaggactgtagagtcagtgggtaTCCTTAGGTCGCTGGTTCGAATCcggctcgacggattt
	**************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_117106
cbriggsae	((((.((.((((...(((.....((..((((((...........))))))..))...))).)))).)).)))).	0.990 -21.90

cbriggsae

chromosome:chrIII_random:790810:790883:1

Same_strand|Intronic_non-coding|NM_117106|NIP5;1/NLM6/NLM8 ## {Repeats: no}

block1886 [novel_cloningOK_Multihit_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

0.166

no

no

0.50/0.63

21/27/0.90

0.0

0.3

7

0

1

0

15

-8

3arm

20

nd

0.52

7

10

1

na

na

		reads	miRBase family seed
seed	-------------------------------------CCUUAGG------------------------------	7	novel
seed	---------------------------------------------CGCUGGU----------------------	1	novel
seed	-----------------------------------------AGGUCGC--------------------------	1	novel
seed	----------------------------------------UAGGUCG---------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------TCCTTAGGTCGCTGGTTCGAATC---------------	23	5
	------------------------------------TCCTTAGGTCGCTGGTTCGAAT----------------	22	2
	----------------------------------------TAGGTCGCTGGTTCGAATCCG-------------	21	1
	---------------------------------------TTAGGTCGCTGGTTCGAATCCG-------------	22	1
	--------------------------------------------TCGCTGGTTCGAATCCGGCTCGACGGA---	27	1
cbriggsae	agttggtagagcggaggactgtagagtcagtgggtaTCCTTAGGTCGCTGGTTCGAATCcggctcgacggattt
	**************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_117106
	------------------------------------------------------------------------------------	NM_065270
cbriggsae	((((.((.((((...(((.....((..((((((...........))))))..))...))).)))).)).)))).	0.990 -21.90

cbriggsae

chromosome:chrIII_random:796103:796176:1

Same_strand|Intronic_non-coding|NM_117106|NIP5;1/NLM6/NLM8 ## Opposite_strand|Intronic_coding|NM_065270|heh-1 ## {Repeats: no}

block2314 [novel_cloningOK_Multihit_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

0.254

no

no

0.50/0.57

21/23/1.00

0.0

0.3

7

0

1

0

5

-8

3arm_loop

20

nd

0.52

7

9

1

na

na

		reads	miRBase family seed
seed	---------------------------CCUUAGG--------------------	7	novel
seed	-------------------------------AGGUCGC----------------	1	novel
seed	------------------------------UAGGUCG-----------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------TCCTTAGGTCGCTGGTTCGAATC-----	23	5
	--------------------------TCCTTAGGTCGCTGGTTCGAAT------	22	2
	-----------------------------TTAGGTCGCTGGTTCGAATCCG---	22	1
	------------------------------TAGGTCGCTGGTTCGAATCCG---	21	1
cbriggsae	gcggaggactgtagagtcagtgggtaTCCTTAGGTCGCTGGTTCGAATCcgacg
	******************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_064152
	----------------------------------------------------------------	NM_067049
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001047648
	----------------------------------------------------------------	NM_065151
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075282
	----------------------------------------------------------------	NM_001106865
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_072208
	----------------------------------------------------------------	NM_075402
	----------------------------------------------------------------	NM_075402
	----------------------------------------------------------------	NM_065139
	----------------------------------------------------------------	NM_171091
	----------------------------------------------------------------	NM_067241
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067285
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_068002
	----------------------------------------------------------------	NM_067755
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067672
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_064726
	----------------------------------------------------------------	NM_182297
	----------------------------------------------------------------	NM_067597
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001844
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000090
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113224
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_201478
	----------------------------------------------------------------	NM_067080
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_033150
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_031163
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001027705
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_012929
	----------------------------------------------------------------	NM_131595
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001081764
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001090075
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_205107
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087258
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001081764
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_198022
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113224
	----------------------------------------------------------------	NM_059821
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_131292
	----------------------------------------------------------------	NM_075282
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_068122
	----------------------------------------------------------------	NM_032085
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_027770
	----------------------------------------------------------------	NM_065139
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_181277
	----------------------------------------------------------------	NM_067594
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113515
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001001135
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001001135
	----------------------------------------------------------------	NM_001031625
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001130548
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007742
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001083844
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001100911
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_131292
	----------------------------------------------------------------	NM_005677
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_031163
	----------------------------------------------------------------	NM_032085
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007742
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_053304
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_053304
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_053304
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011005
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087352
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087352
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001105289
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001081764
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_203889
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001006951
	----------------------------------------------------------------	NM_136816
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001034039
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001090075
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001079250
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_174520
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001079250
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_203889
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001003187
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087789
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_203889
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001034039
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001087352
	----------------------------------------------------------------	NM_001011005
	----------------------------------------------------------------	NM_001034039
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_032085
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_009930
	----------------------------------------------------------------	NM_080538
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_182968
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_007742
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000090
	----------------------------------------------------------------	NM_080544
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113224
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000094
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001113515
	----------------------------------------------------------------	NM_000092
	----------------------------------------------------------------	NM_000088
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000088
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_012929
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_012929
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001124177
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001001135
cbriggsae	.((..(((.....((..((((((...........))))))..))...)))..))	1.000 -14.90

cbriggsae

chromosome:chrIV:13482764:13482817:-1

Same_strand|Intronic_non-coding|NM_064152|ash-2 ## Opposite_strand|Intronic_non-coding|NM_067049|Y47D3A.21 ## Same_strand|Intronic_coding|NM_072208|K12B6.7 ## Opposite_strand|Intronic_coding|NM_065139|gip-1 ## {Repeats: no}

block2364 [novel_cloningOK_Multihit_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

0.157

no

no

0.50/0.63

21/27/0.90

0.0

0.3

7

0

1

0

13

-8

3arm

20

nd

0.52

7

10

1

na

na

		reads	miRBase family seed
seed	-------------------------------------CCUUAGG----------------------------	7	novel
seed	---------------------------------------------CGCUGGU--------------------	1	novel
seed	-----------------------------------------AGGUCGC------------------------	1	novel
seed	----------------------------------------UAGGUCG-------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------TCCTTAGGTCGCTGGTTCGAATC-------------	23	5
	------------------------------------TCCTTAGGTCGCTGGTTCGAAT--------------	22	2
	----------------------------------------TAGGTCGCTGGTTCGAATCCG-----------	21	1
	--------------------------------------------TCGCTGGTTCGAATCCGGCTCGACGGA-	27	1
	---------------------------------------TTAGGTCGCTGGTTCGAATCCG-----------	22	1
cbriggsae	agttggtagagcggaggactgtagagtcagtgggtaTCCTTAGGTCGCTGGTTCGAATCcggctcgacggat
	************************************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_123965
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_024349
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_008091
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_019034
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001016369
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001032772
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001040602
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001093711
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001095157
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_199692
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001033835
	----------------------------------------------------------------------------------	NM_001047948
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_175092
	----------------------------------------------------------------------------------	NM_065286
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001123190
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001126828
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001010953
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001127285
cbriggsae	.(((.((.((((...(((.....((..((((((...........))))))..))...))).)))).)).)))	0.990 -21.50

cbriggsae

chromosome:chrIV:711573:711644:1

Same_strand|Intronic_coding|NM_123965|ARAC2 ## Same_strand|Intronic_non-coding|NM_024349|Ak1 ## Opposite_strand|Intronic_coding|NM_001047948|LOC499584 ## Opposite_strand|Intronic_non-coding|NM_065286|Y53G8AR.6 ## {Repeats: no}

block2814 [novel_cloningOK_Multihit_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

0.254

no

no

0.50/0.57

21/23/1.00

0.0

0.3

7

0

1

0

5

-8

3arm_loop

20

nd

0.52

7

9

1

na

na

		reads	miRBase family seed
seed	---------------------------CCUUAGG--------------------	7	novel
seed	-------------------------------AGGUCGC----------------	1	novel
seed	------------------------------UAGGUCG-----------------	1	novel
		len	cloning frequencies
			AF16
	--------------------------TCCTTAGGTCGCTGGTTCGAATC-----	23	5
	--------------------------TCCTTAGGTCGCTGGTTCGAAT------	22	2
	-----------------------------TTAGGTCGCTGGTTCGAATCCG---	22	1
	------------------------------TAGGTCGCTGGTTCGAATCCG---	21	1
cbriggsae	gcggaggactgtagagtcagtgggtaTCCTTAGGTCGCTGGTTCGAATCcgacg
	******************************************************
	----------------------------------------------------------------	NM_064152
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067049
	----------------------------------------------------------------	NM_001047648
	----------------------------------------------------------------	NM_001011120
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065151
	----------------------------------------------------------------	NM_075282
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001106865
	----------------------------------------------------------------	NM_072208
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075402
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075402
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065139
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_171091
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067241
	----------------------------------------------------------------	NM_067285
	----------------------------------------------------------------	NM_068002
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067755
	----------------------------------------------------------------	NM_067672
	----------------------------------------------------------------	NM_064726
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_182297
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067597
	----------------------------------------------------------------	NM_001844
	----------------------------------------------------------------	NM_000090
	----------------------------------------------------------------	NM_001113224
	----------------------------------------------------------------	NM_201478
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067080
	----------------------------------------------------------------	NM_033150
	----------------------------------------------------------------	NM_031163
	----------------------------------------------------------------	NM_001027705
	----------------------------------------------------------------	NM_012929
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_131595
	----------------------------------------------------------------	NM_001081764
	----------------------------------------------------------------	NM_001090075
	----------------------------------------------------------------	NM_205107
	----------------------------------------------------------------	NM_001087258
	----------------------------------------------------------------	NM_001081764
	----------------------------------------------------------------	NM_198022
	----------------------------------------------------------------	NM_001113224
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_059821
	----------------------------------------------------------------	NM_131292
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_075282
	----------------------------------------------------------------	NM_068122
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_032085
	----------------------------------------------------------------	NM_027770
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_065139
	----------------------------------------------------------------	NM_181277
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_067594
	----------------------------------------------------------------	NM_001113515
	----------------------------------------------------------------	NM_001001135
	----------------------------------------------------------------	NM_001001135
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001031625
	----------------------------------------------------------------	NM_001130548
	----------------------------------------------------------------	NM_007742
	----------------------------------------------------------------	NM_001083844
	----------------------------------------------------------------	NM_001100911
	----------------------------------------------------------------	NM_131292
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_005677
	----------------------------------------------------------------	NM_031163
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_032085
	----------------------------------------------------------------	NM_007742
	----------------------------------------------------------------	NM_053304
	----------------------------------------------------------------	NM_053304
	----------------------------------------------------------------	NM_053304
	----------------------------------------------------------------	NM_001011005
	----------------------------------------------------------------	NM_001087352
	----------------------------------------------------------------	NM_001087352
	----------------------------------------------------------------	NM_001105289
	----------------------------------------------------------------	NM_001081764
	----------------------------------------------------------------	NM_203889
	----------------------------------------------------------------	NM_001006951
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_136816
	----------------------------------------------------------------	NM_001034039
	----------------------------------------------------------------	NM_001090075
	----------------------------------------------------------------	NM_001079250
	----------------------------------------------------------------	NM_174520
	----------------------------------------------------------------	NM_001079250
	----------------------------------------------------------------	NM_203889
	----------------------------------------------------------------	NM_001003187
	----------------------------------------------------------------	NM_001087789
	----------------------------------------------------------------	NM_203889
	----------------------------------------------------------------	NM_001034039
	----------------------------------------------------------------	NM_001087352
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011005
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001034039
	----------------------------------------------------------------	NM_032085
	----------------------------------------------------------------	NM_009930
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_080538
	----------------------------------------------------------------	NM_182968
	----------------------------------------------------------------	NM_007742
	----------------------------------------------------------------	NM_000090
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_080544
	----------------------------------------------------------------	NM_001113224
	----------------------------------------------------------------	NM_000094
	----------------------------------------------------------------	NM_001113515
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000092
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_000088
	----------------------------------------------------------------	NM_000088
	----------------------------------------------------------------	NM_012929
	----------------------------------------------------------------	NM_012929
	----------------------------------------------------------------	NM_001124177
	----------------------------------------------------------------	NM_001001135
cbriggsae	.((..(((.....((..((((((...........))))))..))...)))..))	1.000 -14.90

cbriggsae

chromosome:chrIV:13485218:13485271:1

Opposite_strand|Intronic_non-coding|NM_064152|ash-2 ## Same_strand|Intronic_non-coding|NM_067049|Y47D3A.21 ## Opposite_strand|Intronic_coding|NM_072208|K12B6.7 ## Same_strand|Intronic_coding|NM_065139|gip-1 ## {Repeats: no}

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