miR-Intess™

confident homolog loci of miRBase miRNAs

miRBaseHomolog_cloningHIGH_multiarm_DicerOK_randfoldOK (5 loci)

sblock23 (miRBaseHomolog cel-mir-35) [miRBaseHomolog_cloningHIGH_multiarm_DicerOK_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

miRBaseHomolog cel-mir-35

0.001

no

no

0.43/0.56

18/23/0.62

0.0 0.0

0.8 1.1

8 673

0 0

1 1

0 0

16 14

5 5

5arm 3arm

1 1

nd nd

0.14 0.14

2 2

716

1

1

2

Clusters

Located in cluster 3: cbr-mir-36, cbr-mir-38, cbr-mir-39, cbr-mir-40, block969_novel, cel-mir-35, cbr-mir-41, cbr-mir-35

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--------------------------------	695	miR-35/36/38/39/40/41
seed	-------------------GCAGGUU--------------------------------------------------------------------------	10	novel
seed	-----------------------------------------------------------------GGGUGAA----------------------------	7	novel
seed	--------------------------------------------------------------ACCGGGU-------------------------------	3	miR-42
seed	------------------------------------------------------------UCACCGG---------------------------------	1	novel
		len	cloning frequencies
			AF16
	------------------------------------------------------------TCACCGGGTGAAAATTTGCAAG------------------	22	416
	------------------------------------------------------------TCACCGGGTGAAAATTTGC---------------------	19	257
	------------------------------------------------------------TCACCGGGTGAAAATTTGCAAGT-----------------	23	12
	------------------------------------------------------------TCACCGGGTGAAAATTTG----------------------	18	8
	----------------------------------------------------------------CGGGTGAAAATTTGCAAG------------------	18	7
	------------------CGCAGGTTTTTGCTTCGGTGAT------------------------------------------------------------	22	5
	------------------CGCAGGTTTTTGCTTCGGTG--------------------------------------------------------------	20	3
	------------------------------------------------------------TCACCGGGTGAAAATTTGCAA-------------------	21	2
	-------------------------------------------------------------CACCGGGTGAAAATTTGCAAG------------------	21	2
	------------------CGCAGGTTTTTGCTTCGGTGA-------------------------------------------------------------	21	1
	------------------CGCAGGTTTTTGCTTCGG----------------------------------------------------------------	18	1
	-------------------------------------------------------------CACCGGGTGAAAATTTGCA--------------------	19	1
	-----------------------------------------------------------ATCACCGGGTGAAAATTTGC---------------------	20	1
cbriggsae	--CCCAGTTCCGGACACTCGCAGGTTTTTGCTTCGGTGATATTCGAAGAGCC---GT-TATCACCGGGTGAAAATTTGCAAGTGTCCGGT--AACTGG--
cremanei	TCGGTCGGATCGGACCTACACTGGTTTTCGCTGCGGTGATACTTCGAGA---ATGAT-TATCACCGGGTGAAAATCAGGGCAGGTCCGATTCCACCGA--
celegans	-GGATCAGATCGAGCCATTGCTGGTTTCTTCCACAGTGGTACTTTC--CATTAGAAC-TATCACCGGGTGGAAACTAGCAGTGGCTCGATCTTTTCC---
cbrenneri	-----------------GTGCTGATTTTTGCCGCTGTGATATTTCTA-AGCCATGAT-TATCACCGGGCGAAAATTTGGCAC------------------
cjaponica	-GTCCAGAATTAGACACTGGCTGGTATCCGCGATGGTGTTAC----ACTACTGTAATGTATCACCGGGTGGAAACTTGCAAGTGTC---TCCAACTGGAT
ppacificus	--TCTGAGTCCCTTCGATCGCCTCTGATCACTACGATGAAACTGAGATAACGA--GT-TTTCACCGGGTGAACA---GAAGCTGTTGAAGATATCGGA--
	*   *     *     **  *                 * ******** * * *   *
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_177732
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_214509
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_001030843
	+++++  ++++++++++++++++++++++++++++++++++++++++++++++++++   ++ ++++++++++++++++++++++++++++++++  ++++++  +++++	NM_001101718
	+++++  ++++++++++++++++++++++++++++++++++++++++++++++++++   ++ ++++++++++++++++++++++++++++++++  ++++++  +++++	NM_001011629
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_207243
	-----  --------------------------------------------------   -- --------------------------------  ------  -----	NM_171042
cbriggsae	.(((((((((((((((.(((((((((..((.((((((((..((......)   ). ))))))))))..))))))))).))))))))).  ))))))	1.000 -54.10
cremanei	(((((.(((((((((((...((((((((((((.((((((((..((....   ..)). ))))))))))))))))))))...))))))))))).)))))	1.000 -55.10
celegans	(((..((((((((((((((((((((((..((...((((((.(((.  .....))). ))))))..))..))))))))))))))))))))))..)))	0.992 -53.70
cbrenneri	(((((((((((((((...((((((..((.. ......)). ))))))..)))))))))).)))))	1.000 -23.10
cjaponica	((((((....(((((((.((.(((.(((((..(((((.(((    (.........)))).))))).))))).))).)).))))))   )....))))))	1.000 -40.00
ppacificus	(((((....(((((((.((.((((.(((((.((.(((((((.........)  )) )).)).))))))).))   )).)).)))))))...)))))	1.000 -30.60

cbriggsae	chromosome:chrII:7536385:7536474:1	Opposite_strand|Intronic_non-coding|NM_177732|Slc35d1 ## Opposite_strand|Intronic_coding|NM_214509|COLP1alpha ## Same_strand|Intronic_coding|NM_001101718|LOC100009540 ## Same_strand|Intronic_non-coding|NM_001011629|Mblk-1 ## {Repeats: no}
cremanei	chromosome:chrUn:26787656:26787749:-1	intergenic
celegans	chromosome:chrII:11537528:11537620:1	Opposite_strand|Intronic_coding|Y62F5A.9 ## {MIR: cel-mir-35}
cbrenneri	chromosome:chrUn:47821538:47821667:-1	intergenic ## {SimpF: trf}
cjaponica	chromosome:chrUn:117591227:117591318:-1	Opposite_strand|Intronic_coding|NM_171042
ppacificus	chromosome:chrUn:171595123:171595212:-1	intergenic ## {Repeats: (GA)n 2 38 -1 class=Simple_repeat} ## {SimpF: trf}

cel-mir-90

Cloning frequencies

absolute	AF16
cel-mir-90 5arm	2
cel-mir-90 3arm	33
normalized	AF16
cel-mir-90 5arm	0.005
cel-mir-90 3arm	0.086

sblock35 (miRBaseHomolog cel-mir-90) [miRBaseHomolog_cloningHIGH_multiarm_DicerOK_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

miRBaseHomolog cel-mir-90

0.001

no

no

0.29/0.50

20/24/1.00

0.0 0.0

1.5 0.0

2 29

0 0

1 1

0 0

23 24

5 10

5arm 3arm

1 1

nd nd

0.09 0.17

1 2

35

1

2

2

Families

Member of family miR-50/62/90 (seed GAUAUGU): cel-mir-90, cbr-mir-50, cbr-mir-90, cbr-mir-62

		reads	miRBase family seed
seed	-----------------------------------------------------------------------------GAUAUGU----------------------------------------	33	miR-50/62/90
seed	------------------------GGCCUUC---------------------------------------------------------------------------------------------	2	novel
		len	cloning frequencies
			AF16
	----------------------------------------------------------------------------TGATATGTTGTTTTGAATGTCACT------------------------	24	29
	----------------------------------------------------------------------------TGATATGTTGTTTTGAATGTCAC-------------------------	23	3
	-----------------------CGGCCTTCAACGACTATATCAAC------------------------------------------------------------------------------	23	1
	----------------------------------------------------------------------------TGATATGTTGTTTTGAATGTC---------------------------	21	1
	-----------------------CGGCCTTCAACGACTATATC---------------------------------------------------------------------------------	20	1
cbriggsae	AGATCCTGCAGCACCATTTCAAGCGGCCTTCAACGACTATATCAACCGA-----ATCCAAAT------TCGCGAGTTGATATGTTGTTTTGAATGTCACTTGAGGTTTTTGCTTTTTCGGATTT
cremanei	-------G-GGCCTCACTTCGAGCGGTATTCAACGACTATCTCAACCGATATACATACCAAC---------CGAGTTGATATGTTG-TTTGAATGCCCCTTGAACTCGAGGCCC----------
celegans	ACAAAACG-GGCGCCATTTCGAGCGGCTTTCAACGACGATATCAACCGACA---ACTCACAC----TTTTGCGTGTTGATATGTTG-TTTGAATGCCCCTTGAATTGGATGCC-----------
cjaponica	------------------------GGCTTTCAACGGCGCTATCAACCGA-----------ACTGTGTGTCGCGTGTTGATATGTTG-TTTGAATGCCC--------------------------
	**  ******* *  * ********           *          ** ************ ******** *
	------------------------------------------------------     --------      -------------------------------------------------------------	NM_001090393
	------------------------------------------------------     --------      -------------------------------------------------------------	NM_001730
	++++++++++++++++++++++++++++++++++++++++++++++++++++++     ++++++++      +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_070558
cbriggsae	((((((...((((..((((((((.(((.(((((((((.(((((((((((     ((....))      )))...)))))))))))))..)))).))).))))))))...)))).....))))))	1.000 -37.70
cremanei	( ((((((..((((((.(((((((((((((.((.(((((((..............         )).))))).)))))) )).))))))).))))))...)))))))	0.992 -41.74
celegans	........ (((((((.((((((.(((.(((((((((.((((((((((.((   (.......    ..))))).)))))))))))) )).))).))).)))))).))).))))	1.000 -41.50
cjaponica	(((.((((((((((.(((((((((.           ((.....))..)).)))))))))))) )).))).))).	1.000 -22.60

cbriggsae	chromosome:chrIII:13422678:13422790:-1	Opposite_strand|Intronic_non-coding|NM_001090393|Egr1 ## Same_strand|Intronic_non-coding|NM_070558|rho-1 ## {Repeats: no}
cremanei	chromosome:chrUn:78012950:78013045:-1	intergenic
celegans	chromosome:chrIII:8873895:8873998:-1	intergenic ## {MIR: cel-mir-90}
cjaponica	chromosome:chrUn:4611951:4612103:-1	Opposite_strand|Intronic_coding|NM_080787 ## Same_strand|Intronic_coding|NM_078517 ## {SimpF: trf}

cel-mir-235

Cloning frequencies

absolute	AF16
cel-mir-235 5arm	1
cel-mir-235 3arm	646
normalized	AF16
cel-mir-235 5arm	0.003
cel-mir-235 3arm	1.684

sblock7 (miRBaseHomolog cel-mir-235) [miRBaseHomolog_cloningHIGH_multiarm_DicerOK_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

miRBaseHomolog cel-mir-235

0.001

no

no

0.42/0.63

18/24/0.98

0.0 0.0

0.0 0.0

1 587

0 0

1 1

0 0

16 26

4 5

5arm 3arm

1 1

nd nd

0.12 0.14

1 1

647

1

2

0

Clusters

Located in cluster 1: cbr-mir-235, cel-mir-235

Families

Member of family miR-235 (seed AUUGCAC): cel-mir-235, cbr-mir-235

		reads	miRBase family seed
seed	----------------------------------------------------------------------------AUUGCAC---------------------------------------	626	miR-235
seed	-----------------------------------------------------------------------------UUGCACU--------------------------------------	14	novel
seed	---------------------------------------------------------------------------UAUUGCA----------------------------------------	4	novel
seed	--------------------------------------------------------------------------AUAUUGC-----------------------------------------	1	novel
seed	--------------------------------------------------------------------------------CACUUGA-----------------------------------	1	novel
seed	-----------------------GGCUCUG--------------------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	---------------------------------------------------------------------------TATTGCACTTGACCATGGCCT--------------------------	21	587
	---------------------------------------------------------------------------TATTGCACTTGACCATGGCCTCG------------------------	23	23
	---------------------------------------------------------------------------TATTGCACTTGACCATGG-----------------------------	18	12
	----------------------------------------------------------------------------ATTGCACTTGACCATGGCCTCG------------------------	22	11
	---------------------------------------------------------------------------TATTGCACTTGACCATGGCC---------------------------	20	4
	--------------------------------------------------------------------------ATATTGCACTTGACCATGGCC---------------------------	21	3
	----------------------------------------------------------------------------ATTGCACTTGACCATGGCC---------------------------	19	3
	-------------------------------------------------------------------------------GCACTTGACCATGGCCTCG------------------------	19	1
	--------------------------------------------------------------------------ATATTGCACTTGACCATGGCCT--------------------------	22	1
	----------------------AGGCTCTGGTCATGTGCATATATT----------------------------------------------------------------------------	24	1
	-------------------------------------------------------------------------AATATTGCACTTGACCATGGCCT--------------------------	23	1
cbriggsae	TCTGAAATCTT------GGATCAGGCTCTGGTCATGTGCATATATTGCGCT-------ATATATG------CTAATATTGCACTTGACCATGGCCTCGTCTAGAAAGTAAGACAGTTTCAGA
cremanei	CTTAAA---------------------TAGCTTATGTCTCAAGATC-------------TACAAATTCTTCTAGAAATTGCACTTGAGTTATTTTTC-------------------------
celegans	CTGAAAATCGTCCGAAGATATCAGGATCAGGCCTTGGCTGATTGCAAAATTGTTCACCGTGAAAAT-----TAAATATTGCACTCTCCC--CGGCCTGATCTGAGAGTAAGGCGA-------
cbrenneri	------------------------------GAAATGGGCAAGTACTCGGCA-------ACATGGGGAAGACCACGGATTGCACTTGACTGAAATTTC-------------------------
cjaponica	------------------------GTTCAATTAATTCTTCTGCATTGAACTGCCCAAAATGCACG------TTCGCATTGCACTGAGATAATTGAAA-------------------------
ppacificus	----------------------AGGTTCG----TTGGGTGTGCACT-------------CGTGTG------CTCGAATTGCACTCTGCCGATGGCCT-------------------------
	*                                         ********
	++++++++++++++++      ++++++++++++++++++++++++++++++++++       +++++++      ++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001032899
	----------------      ----------------------------------       -------      --------------------------------------------------------	NM_199320
	++++++++++++++++      ++++++++++++++++++++++++++++++++++       +++++++      ++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_005073
cbriggsae	((((((((.((      ((((.(((((.((((((.(((((.((((((.((.       ......)      )))))))))))).)))))).))))).))))))...........))))))))	0.550 -40.70
cremanei	...(((                     (((((((.((..(((..((             ((.((....)).))))..))).)).))))))))))...	0.980 -11.00
celegans	.......(((.((.......(((.(((((((((..((..((.(((((.(((.(((.....)))...     ..))).))))).))..))  .))))))))))))......)))))	0.995 -35.22
cbrenneri	(((((.(((((((.....(((       (..((((.....)).))..))))))))).))...)))))	0.997 -12.90
cjaponica	.((((((((.(((...((((.((((((((.......))).)      ))))...))))..))).)))))))).	0.999 -18.90
ppacificus	(((.(((    ((((..(((((.(             ((....      ..)))..)))))....))))))))))	0.997 -18.60

cbriggsae	chromosome:chrI:8823486:8823588:-1	Same_strand|Intronic_non-coding|NM_001032899|SLC15A1 ## Opposite_strand|Intronic_non-coding|NM_199320|PHF17 ## {Repeats: no}
cremanei	chromosome:chrUn:103171587:103171729:1	intergenic
celegans	chromosome:chrI:6162292:6162399:-1	intergenic ## {MIR: cel-mir-235}
cbrenneri	chromosome:chrUn:112345882:112346024:-1	Opposite_strand|Boundary_coding|NM_059514
cjaponica	chromosome:chrUn:96983433:96983575:1	Opposite_strand|Intronic_coding|NM_068550
ppacificus	chromosome:chrUn:156568756:156568898:1	Same_strand|Intronic_coding|NM_015263 ## Same_strand|Boundary_coding|NM_078030

cel-mir-56

Cloning frequencies

absolute	AF16
cel-mir-56 5arm	2
cel-mir-56 3arm	63
normalized	AF16
cel-mir-56 5arm	0.005
cel-mir-56 3arm	0.164

sblock74 (miRBaseHomolog cel-mir-56) [miRBaseHomolog_cloningHIGH_multiarm_DicerOK_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

miRBaseHomolog cel-mir-56

0.001

no

no

0.45/0.64

19/25/0.92

0.0 0.0

0.0 0.0

2 46

0 0

1 1

0 0

26 23

6 6

5arm 3arm

1 1

nd nd

0.28 0.14

2 2

65

1

2

2

Clusters

Located in cluster 10: cel-mir-56, cbr-mir-55, block4662_novel, cel-mir-54, block4665_novel, block4666_novel

Families

Member of family miR-51/52/55 (seed ACCCGUA): cel-mir-56, cel-mir-54, cbr-mir-55, cbr-mir-52, cbr-mir-51, block4665_novel, block4666_novel

		reads	miRBase family seed
seed	------------------------------------------------------------------------ACCCGUA-------------------------------------	61	miR-51/52/55
seed	---------------------------AGGGGAU----------------------------------------------------------------------------------	2	novel
seed	----------------------------------------------------------------------------GUAUUGC---------------------------------	1	novel
seed	-------------------------------------------------------------------------CCCGUAU------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------------------------------CACCCGTATTGCTTCCTCTGAG-----------------------	22	46
	-----------------------------------------------------------------------CACCCGTATTGCTTCCTCTG-------------------------	20	10
	-----------------------------------------------------------------------CACCCGTATTGCTTCCTCT--------------------------	19	3
	--------------------------CAGGGGATCCAGTTCCGGTTGTGCC-----------------------------------------------------------------	25	2
	-----------------------------------------------------------------------CACCCGTATTGCTTCCTCTGA------------------------	21	2
	------------------------------------------------------------------------ACCCGTATTGCTTCCTCTGA------------------------	20	1
	---------------------------------------------------------------------------CGTATTGCTTCCTCTGAGAA---------------------	20	1
cbriggsae	TGGAACGGAACATCAGTTTCTGTTCTCAGGGGATCCAGTTCCGGTTGTGCCTCATCTCAATACCCAGATGGCACCCGTATTGCTTCCTCTGAGAATCGACTGCGTACCGCATTCAG
cremanei	------------------------CTTGGCGAATCCA-TTCCGGGTGTACCTCACAGCAAT--CCTGACGGTACCCGTAATGCTTCCGCTGAG-----------------------
celegans	--------GGAGCCAGTGTCTGTTCTTGGCGGATCCATTTTGGGTTGTACCTCATCCTAAA--TTTGACGGTACCCGTAATGTTTCCGCTGAGAACCGACTGTGCACC--------
	**  * * ***** **  ** *** *****    **      ** ** ******* ** **** *****
	------------------------------------------------------------------------------------------------------------------------------	NM_026450
	------------------------------------------------------------------------------------------------------------------------------	NM_001011629
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_064155
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	NM_001101467
	------------------------------------------------------------------------------------------------------------------------------	NM_205032
cbriggsae	((((.(((.((..(((((...((((((((((((..((((..(((..(((((..((((........)))))))))))).))))..)))))))))))).))))).)).)))..)))).	0.970 -44.70
cremanei	((..(((....(( ((.(((((..(((...(((....  .)))..)))))))).))))....)))..))	1.000 -22.00
celegans	((.((((..(((.(((((..(((((..((((.(((((...((((((.......  ..))).)))))))).))))..)))))..))))).))))).)).))	0.999 -43.00

cbriggsae	chromosome:chrX:16836837:16836952:-1	Opposite_strand|Intronic_non-coding|NM_026450|Zfp169 ## Same_strand|Intronic_non-coding|NM_064155|Y17G7B.3 ## {Repeats: no}
cremanei	chromosome:chrUn:90883010:90883165:1	intergenic
celegans	chromosome:chrX:13144612:13144709:-1	intergenic ## {MIR: cel-mir-56}

cel-mir-237

Cloning frequencies

absolute	AF16
cel-mir-237 5arm	40
cel-mir-237 3arm	1
normalized	AF16
cel-mir-237 5arm	0.104
cel-mir-237 3arm	0.003

sblock89 (miRBaseHomolog cel-mir-237) [miRBaseHomolog_cloningHIGH_multiarm_DicerOK_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

miRBaseHomolog cel-mir-237

0.001

no

no

0.52/0.60

20/23/1.00

0.0 0.0

0.0 0.0

40 1

0 0

1 1

0 0

22 32

3 5

5arm 3arm

1 1

nd nd

0.26 0.15

3 3

41

1

2

0

Families

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

		reads	miRBase family seed
seed	--------------------------------------CCCUGAG---------------------------------------------------------------------------------------------	40	lin-4
seed	-----------------------------------------------------------------------------UGUCGAG------------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------TCCCTGAGAATGCTCCGACATC-T-----------------------------------------------------------------------------	23	40
	----------------------------------------------------------------------------CTGTCGAGCACCATTGGGGA------------------------------------------	20	1
cbriggsae	---------------TCTTGAAAACCATGTTTGGTGGTCCCTGAGAATGCTCCGACATC-TTCGAAGTA-GCGTAGCTGTCGAGCACCATTGGGGACCAGCGGA----------TTTTTGGTTATAATTTTTTTCAAG
cremanei	ACTTCTCTCAGTATTCCCCAGTTACCGTCTTTGGTGGTCCCTGAGAATGCTCTGACTGCTTTCGAAGTACACGCAGCAGTCGAGTATCCTTAGGAACCAGTAAATTACGGTTCTTTTTTGAATACCATATAGATTGGT
celegans	-----TTCAAGCTGTTCAAAACTTCTACATTGCGTGGTCCCTGAGAATTCTCGAACAGC-TTCAAAGTGTTCA-AGCTGTCGAGTTTTGTCAAGGACCAAACAA------------------TAGAAGATCACTTGGG
cbrenneri	-------------------------------------TCCCTGAG------CTG------TTTGAAGT---CATATGTGGCGTGTA--------GACAAGGGGA----------------------------------
	********      *        **  ****   *  *   * ** *           ** *    *
cbriggsae	.(((((((((((.(((((.((((((((((...((((.(((((.( (.((..... .)).)).)))))))))...)))))))))).))))          )...))))).........))))))	0.990 -45.00
cremanei	(((..(((..((((((.......(((((.((((.((((.((((((.((((((.(((((((..((.......)).))))))))))))).)))))).)))).))))..)))))........)))))).....)))..)))	0.984 -48.16
celegans	.(((((.((.......((((((..(((..((((((.(((.((..((((.((((( ((.((....)).) ))))))))))..)).))).))))))..)))                  ))))))..))))))).	0.996 -41.00
cbrenneri	(((((...      .((      ((((..((   ((....))))...))        )))).)))))	1.000 -14.50

cbriggsae	chromosome:chrX:16201673:16201783:1	{Repeats: no}
cremanei	chromosome:chrUn:90989797:90989934:1	intergenic
celegans	chromosome:chrX:8154010:8154122:1	intergenic ## {MIR: cel-mir-237}
cbrenneri	chromosome:chrUn:103710003:103710153:-1	intergenic

miRBaseHomolog_cloningOK_randfoldOK (4 loci)

cel-mir-76

Cloning frequencies

absolute	AF16
cel-mir-76 3arm	14
normalized	AF16
cel-mir-76 3arm	0.036

block1888 (miRBaseHomolog cel-mir-76) [miRBaseHomolog_cloningOK_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

miRBaseHomolog cel-mir-76

0.001

no

no

0.35/0.35

20/20/1.00

0.0

0.0

14

0

1

0

18

6

3arm

1

nd

0.05

1

14

1

na

na

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------------UCGUUGU-----------------------------------------------------------	14	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------------TTCGTTGTTGATGAAGTCTT-----------------------------------------------	20	14
cbriggsae	----------------------ATCCCTCATTCGCCAATTAGGACTTCACAACATGCGAATACCACCACTTCTA-----TGGATATTCGTTGTTGATGAAGTCTTAATGGACGTCT--GCGGGGT---------------------------
cremanei	----------AAGTTTGATCTACTCGCCCGTCCACCTTTTAGGACTTCACGACAATCGAATACC-----TTCCACACACTGGATATTCGTTGTTGATGAAGTCTTAATGGGTGTCTTGAATCGGGGACCGTTTTTTTAAACTT---------
celegans	-----------AGGTAAGATAAAATTTCAGCT--CCTGTCTGGGCTTCACAATAGTCGAATACCTTAAATTTCAAAATTTGGATATTCGTTGTTGATGAAGCCTTGATGGGGGT------GAGAAAGAAGTTTGCTTAGCT-----------
cbrenneri	------------------------GCCCTATCCATCTGTCAGGACTTCACAATAGTCGAATACCGATAGC---------AGGATATTCGTTGTTGATGAAGTCTTAATGGGTGTTTTGATGGGGT---------------------------
cjaponica	TTTTTCGACACAGTTGAAATGAGTGCTACCGTAACCCATTAAAAAATGTAAACAGG-------------TTCTA-----TTGTTTTTCGTTGTTTA---------AATGGGTTTC-------GGTCGCACTCATTTCAACTGTGTCGAAAAA
	*  *       *    * *                           * * ********* *          ****   *        *
cbriggsae	(((((.((..((((.(((((((((((((((((.((((((((((.........     ))).)))))))))))).)))))))))))))).))..)  ).)))))	1.000 -42.60
cremanei	((((((((...((((.(((((((((((.(((((((((((((((((.((((((..     .((((.....)))))))))))))))).))))))))))).)))))....))..))))))..))....))))))))	0.997 -47.40
celegans	((.((((...(((((((.(((  ((((((.((((((((((((((.((((((((..(((((....))))))).)))))))))))).)))))))).)))))))))      ......))))))).)))).))	0.999 -46.80
cbrenneri	(((((((((((((((.(((((((((((((((.((((((((......         .)).)))))))))))).))))))))).)))))))....))))))))	1.000 -42.10
cjaponica	.(((((((((((((((((((((((((.((((.(((((((((((.((((.((((((.             .....     ))))))..)))).))))         ).)))))).)       ))).))))))))))))))))))))))))).	1.000 -66.90

cbriggsae	chromosome:chrIII_random:852345:852440:1	{Repeats: no}
cremanei	chromosome:chrUn:119622816:119622943:-1	intergenic
celegans	chromosome:chrIII:3142023:3142144:1	intergenic ## {MIR: cel-mir-76}
cbrenneri	chromosome:chrUn:44284723:44284814:-1	intergenic
cjaponica	chromosome:chrUn:96671466:96671583:-1	Opposite_strand|Intronic_coding|NM_005381

cel-mir-35

Cloning frequencies

absolute	AF16
cel-mir-35 5arm	10
cel-mir-35 3arm	740.567
normalized	AF16
cel-mir-35 5arm	0.026
cel-mir-35 3arm	1.930

block5112 (miRBaseHomolog cel-mir-35) [miRBaseHomolog_cloningOK_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

miRBaseHomolog cel-mir-35

0.001

no

no

0.47/0.48

19/21/0.94

0.0

0.0

16

0

1

0

26

5

3arm

2

nd

0.19

2

17

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-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-----------------------------------------------------------	17	miR-35/36/38/39/40/41
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------------------TCACCGGGTGAAAATTGGTAC----------------------------------------------	21	16
	-------------------------------------------------------------------------------------------TCACCGGGTGAAAATTGGT------------------------------------------------	19	1
cbriggsae	---------------GAAGTTGATAGTCTGGA-----TCGGACCTGCGTCAGTTT-TTATCACTGTGATATTCCAAG--CATAACGG-TTATCACCGGGTGAAAATTGGTACAGGTCCGATCCATTCGAACG------------------ACTTCA--
cremanei	-------------------------GGTCGGA-----TCGGCCCTCCACTGGTTT-TCGCCTCGGTCATATTTCAAG--TATGA----TTATCACCGGGTGAAAATCAGAGCAGGG----CCGATTCCACC---------------------------
celegans	------TTCCCAACTATTATTCTCGGATCAGA-----TCGAGCCATTGCTGGTTT-CTTCCACAGTGGTACTTTCCA----TTAGAA-CTATCACCGGGTGGAAACTAGCAGTGGC---------TCGATCT------------------TTTCC---
cbrenneri	--------------------TTCAGGGGTGGA-----TCGGGCCTGTGCTGATTT-TTGCCGCTGTGATATTTCTAAGCCATGA----TTATCACCGGGCGAAAATTTGGCACAGG----CCTCGTCCGCCC------------------TTCCTGAG
cjaponica	GGTGAACACTTGCAGTGGTCCCTCGGGGCAGAAGAGCCAGGACCTACATCAGTTTCTTTCCGCGGTAATAAATAATA--CATTA----TTATCACCGGGAGAAAAACTGGAGTAGGACCTGCGACTCGACTCGACCTTTATTCCGCTGTATTTTTGCT
ppacificus	---------------------------TCTGA-------GTCCCTTCGATCGCCTCTGATCACTACGATGAAACTGA--GATAACGAGTTTTCACCGGGTGAACAGAAGCTGTTGA----AGATATCGGA----------------------------
	**       *  **          *     * *     *            * *     * ******** * * *   *     *          **
cbriggsae	(((((((......((((     (((((((((..((((((( (((((...((((((..((...  ......)) .))))))..))))))))))))..)))))))))))))......))                  ))))).	1.000 -56.00
cremanei	(((.(((     ((((((((...((((((( (((((.((((.(((..(((..  ..)))    .))).))))))))))))))))...))))    ))))))).)))	1.000 -49.80
celegans	..................(((..(((     (((((((((((((((((( (..((...((((((.(((...    ...))) .))))))..))..)))))))))))))))         )))))))                  ..)))	0.989 -54.00
cbrenneri	.(((((((((((     (.(((((((((((((((( (((((...((((((..((........))    .))))))..)))))))))).))))))))    ))).))))))))                  ...)))).	1.000 -59.20
cjaponica	((..((....((((((((......((((..((.(((.((((.(((((..((((((.(((((.((((.((.(((((..  ..)))    )))).))))))))).))))))..))))).))))...)))...))..))))....))))))))..))..))	0.958 -55.70
ppacificus	(((((       ....(((((((.((.((((.(((((.((.(((((((..  .......))))).)).))))))).)))).)).)))))    ))...)))))	1.000 -30.60

cbriggsae	chromosome:chrX:15333569:15333682:1	{Repeats: no}
cremanei	chromosome:chrUn:26788069:26788158:-1	intergenic ## {SimpF: trf}
celegans	chromosome:chrII:11537510:11537620:1	Opposite_strand|Intronic_coding|Y62F5A.9 ## {MIR: cel-mir-35}
cbrenneri	chromosome:chrUn:47821549:47821654:-1	intergenic ## {SimpF: trf}
cjaponica	chromosome:chrUn:117591693:117591844:-1	Opposite_strand|Intronic_coding|NM_171042
ppacificus	chromosome:chrUn:171595123:171595212:-1	intergenic ## {Repeats: (GA)n 2 38 -1 class=Simple_repeat} ## {SimpF: trf}

block5115 (miRBaseHomolog cel-mir-35) [miRBaseHomolog_cloningOK_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

miRBaseHomolog cel-mir-35

0.005

no

no

0.50/0.52

21/22/1.00

0.0

0.0

19

0

1

0

28

5

3arm

1

nd

0.19

2

20

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-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--------------------------------------------	19	miR-35/36/38/39/40/41
seed	-----------------------------------------------------------------------------------UCACCGG---------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-----------------------------------------------------------------------------------TCACCGGGTGACAATTAGGAC-------------------------------	21	19
	----------------------------------------------------------------------------------ATCACCGGGTGACAATTAGGAC-------------------------------	22	1
cbriggsae	--------TAATCTTTGAGGTCCGAGTCGGACCTGCCCTGATTCTTGCTGCAGTGATATTTCGAACGGCTA-------GATTATCACCGGGTGACAATTAGGACAGGTC--CGACCCC-TAGTGACCCGGATTGC
cremanei	-----------------TCGGTCGGATCGGACCTACACTGGTTTTCGCTGCGGTGATAC----------TTCGAGAATGATTATCACCGGGTGAAAATCAGGGCAGGTC--CGATTCCACCGA------------
celegans	TTCCCAACTATTATTCTCGGATCAGATCGAGCCATTGCTGGTTTCTTCCACAGTGGTACT---------TTCCATTAGAACTATCACCGGGTGGAAACTAGCAGTGGCT--CGATCTTTTCC-------------
cbrenneri	-------GTGAGTTTAGCAGGTCTTGT--GACCTCGGTGGTTTCTTGCCGCGGTGATATGCACATTCACTTCCATAATTGATATCACCGGGTGAAAAATCACCAAGGTCGACGATTCTGTTCTATTTTTTCTCGC
cjaponica	---------------------------------ACAGTTATTTTTTGCTACAGTTCTATTCCGAAGTTTTTTCG----AAATAGCACCGGGCCGACAATATCTAA------------------------------
	**    *  * **  **           *           ** *******     *
cbriggsae	((((((....((((...((((((((((.(((((((.(((((...((((((..((.........       )).))))))..))))).))))))).))))))  ))))... ....)))).)))))).	0.920 -44.10
cremanei	(((((.(((((((((((...((((((((((((.((((((((.          .((......)).))))))))))))))))))))...)))))  )))))).)))))	1.000 -55.10
celegans	..................(((..((((((((((((((((((((((..((...((((((.(         ((......))).))))))..))..))))))))))))))))  ))))))..)))	0.989 -54.00
cbrenneri	(((((...((((((..((((  (((((.((((((((.(((((.(((((((((.((................)))))))))))))))).)))))))).))))).)))).)))))).........)))))	0.999 -47.09
cjaponica	..((.((((.((.(((...((.(((((.(((((...)))))    .))))).))..))).)).)))).))..	0.999 -12.50

cbriggsae	chromosome:chrX:15334006:15334122:1	{Repeats: no}
cremanei	chromosome:chrUn:26787656:26787749:-1	intergenic
celegans	chromosome:chrII:11537510:11537620:1	Opposite_strand|Intronic_coding|Y62F5A.9 ## {MIR: cel-mir-35}
cbrenneri	chromosome:chrUn:41613114:41613239:-1	Same_strand|Intronic_coding|NM_001056672 ## Opposite_strand|Intronic_coding|NM_171042
cjaponica	chromosome:chrUn:110443635:110443791:1	Opposite_strand|Boundary_coding|NM_058329

cel-mir-36

Cloning frequencies

absolute	AF16
cel-mir-36 3arm	8.500
normalized	AF16
cel-mir-36 3arm	0.022

block5130 (miRBaseHomolog cel-mir-36) [miRBaseHomolog_cloningOK_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

miRBaseHomolog cel-mir-36

0.001

no

no

0.47/0.48

19/21/0.94

0.0

0.0

16

0

1

0

11

5

3arm

2

nd

0.19

2

17

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-------------------------------------	17	miR-35/36/38/39/40/41
		len	cloning frequencies
			AF16
	-------------------------------------------------------------TCACCGGGTGAA---AA-TTGGTAC--------------------	21	16
	-------------------------------------------------------------TCACCGGGTGAA---AA-TTGGT----------------------	19	1
cbriggsae	------GACTCGGTCCTGCGCCACTTT-CCACCGCGGTGATATTCCAAGCAAAACGG-TTATCACCGGGTGAA---AA-TTGGTACAGGTC---CGATCC------
cremanei	TCGGTCGGATCGGACCTACACTGGTTT-TCGCTGCGGTGATACTTCGAG---AATGA-TTATCACCGGGTGAA---AA-TCAGGGCAGGTC---CGATTCCACCGA
celegans	-CCGCTGTCGGGGAACCGCGCCAATTT-TCGCTTCAGTGCTAGACCATCCAAAGTGT-CTATCACCGGGTGAA---AA-TTCGCATGGGTCCC-CGACGCGG----
cbrenneri	-----------------GTGCTGATTT-TTGCCGCTGTGATATTTCTAA-GCCATGA-TTATCACCGGGCGAA---AATTTGGCAC--------------------
cjaponica	-----GAGCCAGGACCTACATCAGTTTCTTTCCGCGGTAATAAATAATA---CATTA-TTATCACCGGGAGAA---AAACTGGAGTAGGACCTGCGACTC------
ppacificus	------TCTGAGTCCCTTCGATCGCCTCTGATCACTACGATGAAACTGAGATAACGAGTTTTCACCGGGTGAACAGAAGCTGTTGAAGATATCGGA----------
	*       *     *                  * ******** ***   **
cbriggsae	((.((((.((((..(((.((( .((((.((((((((..((.........)) .)))))))))))).)   )) .)))..)))).)   ))))).	1.000 -41.40
cremanei	(((((.(((((((((((...((((((( (((((.((((((((..((...   ...)) .))))))))))))))   )) ))))...)))))   )))))).)))))	1.000 -55.10
celegans	((((.((((((((.(((.((.((((( ((((((..(((.((((.(((.....)))) ))).))).)))))))   )) )).)).))).)))) ))))))))	1.000 -47.90
cbrenneri	(((((((((( (((((...((((((..((... .....)) .))))))..))))))   )))).)))))	1.000 -23.10
cjaponica	(((.((((.(((((..((((((.(((((.((((.((.(((((..   ..))) )))).))))))))).   ))))))..))))).))))...)))	1.000 -35.20
ppacificus	(((((....(((((((.((.((((.(((((.((.(((((((.........))))).)).))))))).)))).)).)))))))...)))))	1.000 -30.60

cbriggsae	chromosome:chrX:15337746:15337830:1	{Repeats: no}
cremanei	chromosome:chrUn:26787656:26787749:-1	intergenic
celegans	chromosome:chrII:11537631:11537724:1	Opposite_strand|Intronic_coding|Y62F5A.9 ## {MIR: cel-mir-36}
cbrenneri	chromosome:chrUn:47821542:47821666:-1	intergenic ## {SimpF: trf}
cjaponica	chromosome:chrUn:117591724:117591811:-1	Opposite_strand|Intronic_coding|NM_171042
ppacificus	chromosome:chrUn:171595123:171595212:-1	intergenic ## {Repeats: (GA)n 2 38 -1 class=Simple_repeat} ## {SimpF: trf}

miRBaseHomolog_cloningHIGH_randfoldOK (2 loci)

cel-mir-73

Cloning frequencies

absolute	AF16
cel-mir-73 3arm	104
normalized	AF16
cel-mir-73 3arm	0.271

block571 (miRBaseHomolog cel-mir-73) [miRBaseHomolog_cloningHIGH_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

miRBaseHomolog cel-mir-73

0.002

no

no

0.47/0.59

19/23/0.97

0.0

0.6

100

0

1

0

14

5

3arm

1

nd

0.22

2

104

1

na

na

Families

Member of family miR-73/74 (seed GGCAAGA): cel-mir-73, cbr-mir-74, cbr-mir-73, sblock19_novel, sblock69_novel

		reads	miRBase family seed
seed	--------------------------------------------------------------------------------GGCAAGA-----------------------------------------------	100	miR-73/74
seed	------------------------------------------------------------------------------------AGAUGUU-------------------------------------------	3	novel
seed	-------------------------------------------------------------------------------UGGCAAG------------------------------------------------	1	novel
		len	cloning frequencies
			AF16
	-------------------------------------------------------------------------------TGGCAAGATGTTGGCAGTCGCAT--------------------------------	23	69
	-------------------------------------------------------------------------------TGGCAAGATGTTGGCAGTCGC----------------------------------	21	31
	-----------------------------------------------------------------------------------AAGATGTTGGCAGTCGCAT--------------------------------	19	3
	------------------------------------------------------------------------------CTGGCAAGATGTTGGCAGTCGC----------------------------------	22	1
cbriggsae	--------------CGTCCCAAAATTCCGATCCGGCTTCCACATCGAGCCTCAGCT------A--GATCCATAACTTGCTGGCAAGATGTTGGCAGTCGCATTGGATA---AAGGAGAC---------------
cremanei	------CAGCGAGAGGTCCCTCAA--ACGACTGAGCTTCCACGTCAAGCCTCAGCT------ATCGAATGAAAAATTGCTGGCAAGATGTAGGCAGTTCAGTTGTATG----CGGAGACCAATTTCCTG-----
celegans	TTATTCCAGTGAG-AGTCCCACAC--ACGACTGGACTTCCATATCGAGCCACAGCT------ATCAA---CGAATTTGCTGGCAAGATGTAGGCAGTTCAGTTGTGCGTTTATGGAGACCAACATCCGGATTAA
cbrenneri	--------------------------GCGATTGGGCTTCCAAGTCTA--CCCAGCA------CTTAA---AAAAGTGGCTGGCAAGACTATGGCAGTCCACTTGC-----------------------------
cjaponica	------GTGTGAGCGGTCCATCGA--GCGACCGAACTTCCATATCGAGCC-CAGCCCACTCGACCAA---ATAAGACGCTGGCAAGATGTTGGCAGTTCAGTCGCAAG---ATTGTGACCAATACTTGCTCCAC
	***     ******  ** *  * ****           *     **   **********    ******    * *
	+++++              ++++++++++++++++++++++++++++++++++++++++++      +  +++++++++++++++++++++++++++++++++++++++++++   ++++++++               +++++	NM_059625
cbriggsae	.(((((.....((((((.(((((.(((((((..(((..(((.      (  (........)).))))))..))))).)).))))).))))))..   ..)).)))	1.000 -35.10
cremanei	(((.((((((((((.((.  (((((((((((.(((((((..(((..(((.      ...............))))))..))))).)).))))))))))).))    .)).))))..)))))))	0.999 -45.19
celegans	.((.(((.(((.. .(((((((.(  (((((((((((.(((((((..(((..(((.      .....   .......))))))..))))).)).)))))))))))).))....)).)))...)))..))).)).	0.990 -41.92
cbrenneri	((((.((((((.((((((((.  .((((((      (((..   ..))))).))))..))))).))).)))))).))))	1.000 -32.90
cjaponica	(((.((((((((((((..  (((((.(((((.(((((((..((. ((((....((......   ....)).))))))..))))).)).))))).)))))..)   ).)).)))).......)))))))	0.997 -44.31

cbriggsae	chromosome:chrI_random:3307356:3307449:1	Same_strand|Intronic_coding|NM_059625|K07G5.3 ## {Repeats: no}
cremanei	chromosome:chrUn:103837693:103837803:-1	intergenic
celegans	chromosome:chrX:2368753:2368874:1	intergenic ## {MIR: cel-mir-73}
cbrenneri	chromosome:chrUn:1030285:1030352:-1	intergenic
cjaponica	chromosome:chrUn:6831545:6831663:1	intergenic

Back to summary page

confident homolog loci of miRBase miRNAs:

Page 1

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