miR-Intess: classification

candidate novel miRNAs

block4958_cand

Cloning frequencies
absolute	AF16
block4958_cand 3arm	1
normalized	AF16
block4958_cand 3arm	0.003

block4958 [novel_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	0.52/0.52	21/21/1.00	0.0	0.0	1	0	1	0	14	8	3arm	1	nd	0.19	1	1	1	na	na

Families
Member of family miR-44/45/61 (seed GACUAGA): cbr-mir-44, cbr-mir-45, cbr-mir-45, cbr-mir-61, block4958_cand

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------GACUAGA------------------------------------------------	1	miR-44/45/61
		len	cloning frequencies
			AF16
	-------------------------------------------------------T---------------------------GACTAGAGTGCTGAGCTCTC-----------------------------------	21	1
cbriggsae	-CCTCCCTCCGAGTAGAGTTCAGACCCTGGTGACCTACAGCAGT--AGCATGAGGT---------------------------GACTAGAGTGCTGAGCTCTC-------------CTTGGTTCAGAGGC--------
cremanei	---AATTTTAAAATCAGATTCAGAATCCTCACGCCTTCAGCTTT----CTAGAAATTCTAATTATTATAAAAATTACAT----GACTAGAAAGCTGAAGACACATGGATTCTGAATCCGGTTTCAAAATT--------
celegans	TCAACCCTTCGAAGTGA--TCA----------ACCAACAGAGAAGAAGCTTCAAATGGCTGCTCTAGCAGAAGCTGCAGCAAAGACTAGAAGACTTCGTCCAT-----CTCGTGATCCAGCTTTAGAATCTCAGTTGG
	* * * *** * * * ***** * * * ** * *
cbriggsae	((((...(((((.(((((((((((.(((((.((((.((((... .)).)))))) .))))).)).))))))))). )))))....)))).	1.000 -43.70
cremanei	((((((.(((((.((((((((((((......(((((((((( ((((..((..(((((........))))).)) ..))))))))))))))......)))))))))))).))))).))))))	0.999 -46.40
celegans	.((((..(((((((((( ((( .......((((.((((((((.....(((((...(((....))))))))........)))).)))).....) ))).)))))..))))).))).....)))).	0.840 -30.02

cbriggsae	chromosome:chrX:9929423:9929509:1	{Repeats: no}
cremanei	chromosome:chrUn:76148535:76148653:1	Same_strand\|Intronic_coding\|NM_071262 ## {SimpF: trf,trf}
celegans	chromosome:chrIII:10727544:10727664:-1	Same_strand\|Exonic_coding\|W09D10.2

block4979_cand

Cloning frequencies
absolute	AF16
block4979_cand 3arm	0.500
normalized	AF16
block4979_cand 3arm	0.001

block4979 [novel_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	0.43/0.43	23/23/1.00	0.0	0.0	1	0	1	0	9	7	3arm	2	nd	0.17	2	1	1	na	na

Families
Member of family novel1 (seed AACCCAA): block4517_cand, block4979_cand

		reads	miRBase family seed
seed	-------------------------------------------------AACCCAA------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------TAACCCAATCACGAAAATGGCTG---------	23	1
cbriggsae	agttcctttcagccacttcggttgtggttatacaaacagaagttgataTAACCCAATCACGAAAATGGCTGatggtgatg
	********************************************************************************
	------------------------------------------------------------------------------------------	NM_027552
	------------------------------------------------------------------------------------------	NM_001019667
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_011438
cbriggsae	.((..((.(((((((.((((((((.(((((((..(((....)))..)))))))))))..))))..))))))).))..)).	1.000 -28.70

cbriggsae

chromosome:chrX:10977022:10977101:1

Opposite_strand|Intronic_non-coding|NM_027552|Kynu ## Opposite_strand|Intronic_coding|NM_001019667|SPAC17A2.10c ## Same_strand|Intronic_non-coding|NM_011438|Sox12 ## {Repeats: no}

block5060_cand

Cloning frequencies
absolute	AF16
block5060_cand 3arm	3
normalized	AF16
block5060_cand 3arm	0.008

block5060 [novel_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	0.43/0.43	21/21/1.00	0.0	0.0	3	0	1	0	17	3	3arm	1	nd	0.14	2	3	1	na	na

		reads	miRBase family seed
seed	--------------------------------------------------------AAGCAGC------------------------------	3	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------TAAGCAGCAGAAAATGGTGTG-----------------	21	3
cbriggsae	TGTTGTGGCTTTATCACACCATTTTGCAGCTTCTAAACACTCAAC-ATGCATTGTTAAGCAGCAGAAAATGGTGTGAAGAGGTTGTACAACAA
celegans	---------------------TTTCACATTTGTTGGAAAAGGAATGATTTAAT-TTAAGCAGCAG-AAATG--GTGAAG--------------
	* * * * * * * ********* * ****
	-------------------------------------------------- ----------------------------------------------------	NM_011978
cbriggsae	((((((((((((.((((((((((((((.((((..........((( (.....)))))))).)))))..))))))))).)))))..))))))).	1.000 -33.00
celegans	.(((((.(((((((......((((......)) ))...)))))) ).... ))))).	0.876 -10.20

cbriggsae	chromosome:chrX:14669142:14669233:1	Opposite_strand\|Intronic_non-coding\|NM_011978\|Slc27a2 ## {Repeats: no}
celegans	chromosome:chrV:9453490:9453621:-1	Opposite_strand\|Intronic_coding\|H24G06.1a

block5113_cand

Cloning frequencies
absolute	AF16
block5113_cand 3arm	1
normalized	AF16
block5113_cand 3arm	0.003

block5113 [novel_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	0.57/0.57	21/21/1.00	0.0	0.0	1	0	1	0	15	7	3arm	1	nd	0.29	2	1	1	na	na

Clusters
Located in cluster 13: cel-mir-35, block5113_cand, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35

Families
Member of family miR-42 (seed ACCGGGU): cbr-mir-42, block5113_cand

		reads	miRBase family seed
seed	----------------------------------------------------------------------------------ACCGGGU-------------------------------------------	1	miR-42
		len	cloning frequencies
			AF16
	---------------------------------------------------------------------------------CACCGGGTGAGAACTGGTAGA------------------------------	21	1
cbriggsae	---GGCTGGGATCG------------GACCTCCGCTGGTTTCTGCCGCAGTGATATTC--------CAACGTAGTGGCTATCACCGGGTGAGAACTGGTAGAGGTC--CGATCCAGCCG-------------
cremanei	GAAAGGTAAGTTTAACAGGTCCCCATGACCTTGGTAGTTTTCCGCCGCAGTGATATAC-----CATCAATCAAAACGATATCACCGGGTGAAAAACTACCAAGGT---CGGGTCACCTGTCCTTTT------
cbrenneri	-----GTGAGTTTAGCAGGT-CTTGTGACCTCGGTGGTTTCTTGCCGCGGTGATATGCACATTCACTTCCATAATTGATATCACCGGGTGAAAAATCACCAAGGTCGACGATTCTGTTCTATTTTTTCTCGC
	* * * ***** * * * ***** * * * *********** ** *
cbriggsae	((((.(((((( ((((((..(((((((..(((...((((((..( ((......))).))))))..)))..)))))))..)))))) )))))))))).	1.000 -55.40
cremanei	((((((........((((((..((.((((((((((((((((.((((...(((((((.. ..............)))))))..)))).)))))))))))))) ))))..))))))))))))	0.997 -51.19
cbrenneri	(((((...((((((. .(((((((((.((((((((.(((((.(((((((((.((................)))))))))))))))).)))))))).))))).)))).)))))).........)))))	0.999 -47.09

cbriggsae	chromosome:chrX:15333737:15333830:1	{Repeats: no}
cremanei	chromosome:chrUn:8778361:8778478:-1	Same_strand\|Intronic_coding\|NM_001011005 ## Opposite_strand\|Intronic_coding\|NM_171042
cbrenneri	chromosome:chrUn:170983870:170983995:-1	Opposite_strand\|Intronic_coding\|NM_171042

novel_cloningOK_Multihit_randfoldOK (3 loci)

block5080_cand

Cloning frequencies
absolute	AF16
block5080_cand 3arm	0.429
normalized	AF16
block5080_cand 3arm	0.001

block5080 [novel_cloningOK_Multihit_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	0.35/0.40	19/21/0.83	0.0	0.0	3	0	1	0	24	12	3arm	14	nd	0.10	1	6	1	na	na

Clusters
Located in cluster 12: block5073_cand, block5080_cand

Families
Member of family novel3 (seed GAAUAAG): block5080_cand, block5073_cand

		reads	miRBase family seed
seed	-------------------------------------------------------------------------------------------------GAAUAAG---------------------------------------------------	5	novel
seed	--------------------------------------------------------------------------------------------------AAUAAGU--------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------------------------------------------------------GGAATAAGTA---------GTACCAATGG------------------------------	20	3
	------------------------------------------------------------------------------------------------GGAATAAGTA---------GTACCAATGGT-----------------------------	21	1
	-------------------------------------------------------------------------------------------------GAATAAGTA---------GTACCAATGGT-----------------------------	20	1
	------------------------------------------------------------------------------------------------GGAATAAGTA---------GTACCAATG-------------------------------	19	1
cbriggsae	--------------AATTACTCGG------AATAAGTAGTACCATTATGGTACTAATTACTCGGAATAAGTAGTACCAATTCGATACTACTTACTCGGAATAAGTA---------GTACCAATGGTACTACTTACTCGGAATAAGTAGT------
celegans	TCTCCGAGTGACAAATGTGCTCTATTGTCAAATTGTTGGCAGAAATACGGTATTTATTC------ACATTTTCAGCCAATTTAAGGC-AGAAAATGTGAATAAGTACCCGTTTTTATGCCAACAATACGAGTAGAAACACACAAGTCACAGGGGA
cbrenneri	------GGAGAGGAATTTAT----------AATTCTT-----------GTTGTTTTTTTTCTTGAATAA-------------------AAATATTTTGAATAAGAAGTTCTTCTTG---------------------------------------
	* * *** * * * * ** * * * * * ******* *
	----- ---------- ---------------------------------------------------------------------------- ---------------------------------- -----	NM_011978
cbriggsae	.(((((((.( (.(((((((((((((..((((((((.(((.((.((.(((((((((.........))))))))).)).)).))).)) ))))))))))))))))))).)).))....)))))	1.000 -48.90
celegans	(((((..(((((...((((.((((((((...((((((((((.(((.((((((((((((( ((((((((.(((.......))) .))))))))))))))))))).)).))).)))))))))))).))))))..))))...))))).)))))	1.000 -68.10
cbrenneri	.(((((((((((.. .((((.. ..(((((((.((....)).)) )))))....))))...))))))))))).	0.999 -16.80

cbriggsae	chromosome:chrX:14750925:14751044:1	Opposite_strand\|Intronic_non-coding\|NM_011978\|Slc27a2 ## {SimpF: trf}
celegans	chromosome:chrIII:1903361:1903508:1	Opposite_strand\|Intronic_coding\|B0524.6
cbrenneri	chromosome:chrUn:147612608:147612767:-1	intergenic ## {SimpF: trf}

block5073_cand

Cloning frequencies
absolute	AF16
block5073_cand 3arm	0.429
normalized	AF16
block5073_cand 3arm	0.001

block5073 [novel_cloningOK_Multihit_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	0.35/0.40	19/21/0.83	0.0	0.0	3	0	1	0	6	30	3arm	14	nd	0.10	1	6	1	na	na

Clusters
Located in cluster 12: block5073_cand, block5080_cand

Families
Member of family novel3 (seed GAAUAAG): block5080_cand, block5073_cand

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------------------------------------------GAAUAAG-----------------------------------	5	novel
seed	------------------------------------------------------------------------------------------------------------------AAUAAGU----------------------------------	1	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------------------------------------------GGAATAAGTAGTA----------------CCAATGG-------	20	3
	----------------------------------------------------------------------------------------------------------------GGAATAAGTAGTA----------------CCAATG--------	19	1
	-----------------------------------------------------------------------------------------------------------------GAATAAGTAGTA----------------CCAATGGT------	20	1
	----------------------------------------------------------------------------------------------------------------GGAATAAGTAGTA----------------CCAATGGT------	21	1
cbriggsae	AGTA-GTACCAATGGT-----ACTACTTACTCGGAAT----------AAGTAGTACCAATTCGAT--ACTACTTACTCGGAATAAGTAGTACCAATTCGATACTACTTACTCGGAATAAGTAGTA----------------CCAATGGTACTAC-
celegans	GGCACATTGCATTGTTATTCGACTGGTTACCTGAAATTCAAATATTGTAATATCATTAATGCCACAAACTACTAACTTTT-GTGACTTGCATAATTGCAATATT-----CTCTGAATAAGTTGTAACACCAGTTCCAACTCCCATTAATGCTGCT
	* * * * * ** * *** * ** * *** * * **** * * * * * * * * * *** * * **** * *** * * ** *
	--------- ----------- ---------------- ------------------ ---------------------------------------------------------- ------------- -----	NM_011978
cbriggsae	.((( ((((((.(((( ((((((((.((.((.( ((((((((.....((((( ((((((((.......))))))))).....))))))))))))).)).)).))))))))) ))).)))))))))	1.000 -57.20
celegans	(((((((((...........((((((((((.....((((((((((((((((.......((((((((((.........))) )))....)))).))))))))))) ...))))).....)))..)))))))...........))))).))))	0.943 -29.05

cbriggsae	chromosome:chrX:14750541:14750660:1	Opposite_strand\|Intronic_non-coding\|NM_011978\|Slc27a2 ## {SimpF: trf}
celegans	chromosome:chrIV:10532172:10532320:-1	Opposite_strand\|Boundary_coding\|T07G12.2

block5129_cand

Cloning frequencies
absolute	AF16
block5129_cand 5arm	0.467
normalized	AF16
block5129_cand 5arm	0.001

block5129 [novel_cloningOK_Multihit_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	0.52/0.52	21/23/1.00	0.0	0.6	7	0	1	0	5	17	5arm	15	nd	0.17	2	7	1	na	na

Clusters
Located in cluster 14: block5129_cand, cel-mir-36

Families
Member of family miR-35/36/38/39/40/41 (seed CACCGGG): cel-mir-35, cel-mir-35, cel-mir-36, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cel-mir-35, cbr-mir-39, cbr-mir-35, cbr-mir-36, cbr-mir-40, cbr-mir-41, cbr-mir-38, block969_novel, block5129_cand

		reads	miRBase family seed
seed	------CACCGGG---------------------------------------------------------------------------------------------	7	miR-35/36/38/39/40/41
		len	cloning frequencies
			AF16
	-----TCACCGGGTGAAAACTGGTAG--------------------------------------------------------------------------------	21	5
	-----TCACCGGGTGAAAACTGGTAGAG------------------------------------------------------------------------------	23	2
cbriggsae	gattaTCACCGGGTGAAAACTGGTAGAGgaccttgtagactatcattattatttttcactgttagtctgactcggtcctgcgccactttccaccgcggtgatattc
	**********************************************************************************************************
cbriggsae	((.((((((((((((.(((.((((..((((((..((((((((.((..............)).)))))).))..))))))..)))).))).)))).)))))))).))	1.000 -45.04

cbriggsae

chromosome:chrX:15337678:15337783:1

{Repeats: no}

novel_cloningHIGH_mirtron (1 loci)

block4816_cand

Cloning frequencies
absolute	AF16
block4816_cand 3arm	42
normalized	AF16
block4816_cand 3arm	0.109

block4816 [novel_cloningHIGH_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	0.072	no	no	0.33/0.35	21/23/1.00	0.0	0.0	31	0	1	0	24	3	3arm	1	0	0.26	3	42	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------GACAUGC---------------------------------------	42	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------------------------------TGACATGCCATAATTTCTTACAG------------------------	23	31
	-----------------------------------------------------------------------TGACATGCCATAATTTCTTAC--------------------------	21	11
cbriggsae	---GTAAAAGAAGTTCAGCAAGTCGACGAACCAGGTAAGGATTATTGCTTGTCTCACATAAAAATCTCATGTGACATGCCATAATTTCTTACAGCAACCGCGACATGTCATATCGTAC
ppacificus	TGGGTAAA-----TTCTG-----CGTTGAGCTGTACTGGGATCAC-------------------GCTCCCCGGACATGCCAGAATTTCGCTGA-------------------------
	*** * * * **** * * ***** **** *
	+++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001011629
	+++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001047939
	+++++ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_204234
	----- ------------------------------------------------------------------------------------------------------------------------	NM_178014
	+++++ +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++>>>>>>>>>>>>>>>>>>>>>>>>>>>>>	NM_077168
cbriggsae	(((...((.((...(((.((((.((......(((((((((((.((.((((..((((.........)))))))).)).)))))).)))))......)))))).))).)).)).)))	0.980 -25.00
ppacificus	..(((((( ((((( ......(((((.(((((..... ....)))))))).)))))))))).)))..	0.995 -18.20

cbriggsae	chromosome:chrX:1897708:1897822:1	Same_strand\|Intronic_non-coding\|NM_001011629\|Mblk-1 ## Same_strand\|Intronic_coding\|NM_001047939\|LOC499407 ## Opposite_strand\|Intronic_non-coding\|NM_178014\|TUBB ## Same_strand\|UTR_coding\|NM_077168\|B0416.1 ## {Repeats: no}
ppacificus	chromosome:chrUn:109975239:109975393:-1	Opposite_strand\|Intronic_coding\|NM_001042506 ## Same_strand\|Boundary_non-coding\|NM_068717 ## Same_strand\|Intronic_coding\|NM_177732

novel_cloningHIGH_multiarm_DicerOK_bulgeHIGH (1 loci)

sblock71_cand

Cloning frequencies
absolute	AF16
sblock71_cand 5arm	6
sblock71_cand 3arm	66
normalized	AF16
sblock71_cand 5arm	0.016
sblock71_cand 3arm	0.172

sblock71 [novel_cloningHIGH_multiarm_DicerOK_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	0.036	no	no	0.48/0.60	19/22/0.97	0.0 0.0	0.0 0.0	5 64	0 0	1 1	0 0	28 26	2 8	5arm 3arm	1 1	nd nd	0.23 0.30	5 4	72	1	2	1

Families
Member of family lin-4 (seed CCCUGAG): cel-mir-237, cbr-lin-4, sblock71_cand

		reads	miRBase family seed
seed	------------------------------------------------------------------------CCCUGAG--------------------------------------	66	lin-4
seed	-----------------------------ACGGUAU---------------------------------------------------------------------------------	6	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------------------------------TCCCTGAGTAGCTGCCGTTG--------------------------	20	64
	----------------------------AACGGTATCAACCTCAGGTAGC-------------------------------------------------------------------	22	5
	-----------------------------------------------------------------------TCCCTGAGTAGCTGCCGTT---------------------------	19	2
	----------------------------AACGGTATCAACCTCAGGTAG--------------------------------------------------------------------	21	1
cbriggsae	gcggcctctcgcatgctgtgtgaggctgaacggtatcaacctcaggtagcagagaccacatgactgctagcTCCCTGAGTAGCTGCCGTTGagactcgagaaagcgtgttgttgtcg
	*********************************************************************************************************************
	-------------------------------------------------------------------------------------------------------------------------------	NM_001087279
	-------------------------------------------------------------------------------------------------------------------------------	NM_072843
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001109816
	-------------------------------------------------------------------------------------------------------------------------------	NM_065440
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_020367
cbriggsae	.((((.....(((((((...((((.((.(((((((.....((((((((((((...........))))))....))))))....))))))).)).))))....)))))))....))))	0.990 -44.10

cbriggsae

chromosome:chrX:4497526:4497642:-1

Opposite_strand|Intronic_non-coding|NM_001087279|fbxl5 ## Same_strand|Intronic_coding|NM_001109816|MHC ## Same_strand|Intronic_non-coding|NM_020367|PARP11 ## {Repeats: no}

novel_cloningOK_shortStem_randfoldOK (1 loci)

block1488_cand

Cloning frequencies
absolute	AF16
block1488_cand 5arm	3
normalized	AF16
block1488_cand 5arm	0.008

block1488 [novel_cloningOK_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	0.004	no	no	0.57/0.62	21/23/1.00	0.0	0.0	4	0	1	0	1	0	5arm_loop	2	nd	0.19	1	6	1	na	na

Families
Member of family novel2 (seed CUCGGUC): block1486_novel, block1488_cand

		reads	miRBase family seed
seed	--CUCGGUC----------------------------------------------------------------	6	novel
		len	cloning frequencies
			AF16
	-ACTCGGTC-CGGAGTCAATGGG--------------------------------------------------	21	4
	-ACTCGGTC-CGGAGTCAATGGGT--T----------------------------------------------	23	1
	-ACTCGGTC-CGGAGTCAATGGGT-------------------------------------------------	22	1
cbriggsae	CACTCGGTC-CGGAGTCAATGGGT--TATC--ATTCTCAA-CCTTCCCATTGGCACCAACTTGACCGTTGTGT
cremanei	-ACTCGGTCGTGGAACTCGAGACTACTATCTGAATACCA--CTTTGTTCTCG--AGTCATATGACTGCTT---
cjaponica	-ACTCGGTC-CGACGTCGGTGGGT--TATCTGATTCTGAACCCCTCCCATCGGCACCAACTTGACCGTTGT--
	******** * * * **** * * * * * * * * * **** * *
	-------------- -------------- ---- -------- -------------------------------------	NM_117511
	++++++++++++++ ++++++++++++++ ++++ ++++++++ +++++++++++++++++++++++++++++++++++++	NM_001030661
	++++++++++++++ ++++++++++++++ ++++ ++++++++ +++++++++++++++++++++++++++++++++++++	NM_066606
	++++++++++++++ ++++++++++++++ ++++ ++++++++ +++++++++++++++++++++++++++++++++++++	NM_200908
cbriggsae	(((.((((( .((.(((((((((. .... ........ ....))))))))).)).....)))))..))).	1.000 -24.13
cremanei	...((((((((..((((((((..((....((.....)) ....))))))) )))..))))))))...	0.999 -21.40
cjaponica	...((((( ....(((((((((. ..((.......))......)))))))))........)))))....	0.979 -18.90

cbriggsae	chromosome:chrIII:9059007:9059073:-1	Opposite_strand\|Intronic_non-coding\|NM_117511\|CKI1 ## Same_strand\|Intronic_non-coding\|NM_001030661\|SETD1B ## Same_strand\|Intronic_coding\|NM_066606\|lin-12 ## {Repeats: no}
cremanei	chromosome:chrUn:29149272:29149378:-1	Same_strand\|Intronic_coding\|NM_000444 ## Same_strand\|Boundary_coding\|NM_062137
cjaponica	chromosome:chrUn:67701758:67701864:-1	Opposite_strand\|Intronic_coding\|NM_005183