logoC.elegans small RNAs


miR classification

Alignments

other hairpins

novel_lenNOK (42 loci)

block5520 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.197nono0.21/0.2119/19/0.000.0
0.0
1
0
1
0
20
2
5arm
1
nd
0.11
2
11nana
  readsmiRBase family seed
seed     ---------------------ACAUCUU--------------------------------------------------------------     1novel
  lencloning frequencies
   CE1
      --------------------TACATCTTGCATTTTAAAT---------------------------------------------------     191
celegans     acattttagtggtaaaacatTACATCTTGCATTTTAAATagagatttatttaaatttatgtaaaaaactgtgataatcccagaaattgta      
      ******************************************************************************************      
 ----------------------------------------------------------------------------------------------------Y73B6BL.26 Y73B6BL.26 lgc-10
celegans     (((.(((..(((......((((((..(((((((((((((((....)))))))))...)))))).....))))))....))).))).))).     0.890 -12.60

celeganschromosome:IV:6448112:6448201:1Opposite_strand|Intronic_coding|Y73B6BL.26|Y73B6BL.26 ## Y73B6BL.26|protein_coding|lgc-10|Y73B6BL.26 [Source:RefSeq_peptide;Acc:NP_500985] ## {SimpF: WRM0637bC06 1 fosmid,WRM0634cA05 1 fosmid}


block5914 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.828nono0.44/0.4518/20/0.670.0
0.7
3
0
1
0
11
5
5arm
1
nd
0.28
2
31nana
  readsmiRBase family seed
seed     ------------AGACUAG----------------------------------------------------------------     3novel
  lencloning frequencies
   CE1
      -----------TAGACTAGGCCCTTTTAGAG----------------------------------------------------     202
      -----------TAGACTAGGCCCTTTTAG------------------------------------------------------     181
celegans     gctaaaattaaTAGACTAGGCCCTTTTAGAGagagatagtgcttctaaaaccttgaaaaatgcttatcaaacataatttggtg      
      ***********************************************************************************      
 ..................................................<<<<<<<<<<<<<<<<<<<<<......................Y64G10A.99 Y64G10A.99 21ur-4168
celegans     ((((((.......((.(((((..((((.(((..(((.......))).....))).))))..)))))))........)))))).     0.680 -9.46

celeganschromosome:IV:14298396:14298478:1intergenic ## {SimpF: WRM0634bA12 1 fosmid,WRM0618cA09 1 fosmid,WRM0610dE08 1 fosmid}


block6258 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.397nono0.36/0.3625/25/0.000.0
0.0
2
0
1
0
6
12
5arm
2
nd
0.24
2
21nana
  readsmiRBase family seed
seed-------UAAAGGU------------------------------------------------------------------------------2novel
  lencloning frequencies
   CE1
 ------GTAAAGGTTGTTGGATGATTGTATG-------------------------------------------------------------252
celeganstcttctGTAAAGGTTGTTGGATGATTGTATGagtccgagaagcacttgagccactaggaacgtgctaggaatgcagcgggtttgcattgaag 
 ******************************************************************************************** 
celegans.(((((((.(((.((((((.((..(((((((..(((.((..((......))..)).))).))))).))..)).)))))).))))))..))))0.990 -22.30

celeganschromosome:IV:16930175:16930266:1intergenic ## {SimpF: WRM0621dF01 1 fosmid}


block6646 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.065nono0.32/0.3219/19/0.000.0
0.0
1
0
1
0
34
4
3arm
1
nd
0.16
2
11nana
  readsmiRBase family seed
seed-----------------------------------------------------------------UGAAUUG---------------------------------------------1novel
  lencloning frequencies
   CE1
 ----------------------------------------------------------------TTGAATTGAGTTGTAGATC----------------------------------191
celegansttcacttgtttctctgcatattatcaatcctatttacaattcagttagtgagagtaatgaacttTTGAATTGAGTTGTAGATCaagaatacatgaaaataattttgagtttaaatga 
 ********************************************************************************************************************* 
celegans.(((.(((...(((....((((.(((((.(((((((((((((((((...((((((.....)))))).)))))))))))))))..)).))...))).)))).....)))..))).)))0.810 -22.90

celeganschromosome:V:10191314:10191430:-1intergenic ## {SimpF: WRM066bG06 -1 fosmid,WRM0632dF04 -1 fosmid,WRM065dD10 -1 fosmid,WRM0636dD08 -1 fosmid,WRM0626cH03 -1 fosmid,WRM0638cG12 -1 fosmid,WRM0617dF09 -1 fosmid}


block6760 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.099nono0.26/0.2619/19/0.000.0
0.0
1
0
1
0
13
5
3arm
1
nd
0.21
3
11nana
  readsmiRBase family seed
seed     -----------------------------------------------------------UUUGUUU------------------------     1novel
  lencloning frequencies
   CE1
      ----------------------------------------------------------ATTTGTTTACAAGGAATAG-------------     191
celegans     tatgaaaagacttttattctcattttaagatgaacaattttctcaaaaaaatgtttgaATTTGTTTACAAGGAATAGaaagtcgaacata      
      ******************************************************************************************      
 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...........................................................M04G12.4b.2 M04G12.4 somi-1
 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>...........................................................M04G12.4b.1 M04G12.4 somi-1
celegans     ((((....((((((((((((..........(((((((.....(((((......)))))..)))))))...))))))))).)))...))))     0.420 -13.92

celeganschromosome:V:13386001:13386090:-1intergenic ## {SimpF: WRM0638aE07 -1 fosmid,WRM064cH02 -1 fosmid,WRM0635dF12 -1 fosmid,WRM068dF01 -1 fosmid,WRM0632aC10 -1 fosmid,WRM0627aB06 -1 fosmid,WRM0631bA06 -1 fosmid,WRM0636bA06 -1 fosmid,WRM0635dB07 -1 fosmid,WRM0637cC04 -1 fosmid,WRM066bH03 -1 fosmid}


block7012 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.208nono0.40/0.4522/25/0.670.0
1.0
3
0
1
0
9
6
3arm
1
nd
0.28
3
31nana
  readsmiRBase family seed
seed----------------------------------------------------------------UUGCAGA--------------------------3novel
  lencloning frequencies
   CE1
 ---------------------------------------------------------------GTTGCAGATAACTGGTACAAGG------------222
 ---------------------------------------------------------------GTTGCAGATAACTGGTACAAGGATT---------251
celeganstcaaattaaaacttgagtagatatcgtgtatgaggtttcacaacccttccatctttaaaacccGTTGCAGATAACTGGTACAAGGATTatttctgaa 
 ************************************************************************************************* 
celegans(((((.(((..((((..(((.((((.((((((.(((((...................)))))))).))))))).)))...))))..))).)).))).0.970 -15.31

celeganschromosome:V:20379578:20379674:-1intergenic


block7068 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.070nono0.22/0.2218/18/0.000.0
0.0
1
0
1
0
17
14
5arm
3
nd
0.17
2
11nana
  readsmiRBase family seed
seed------------------UUUUGAG------------------------------------------------------------------------------------1novel
  lencloning frequencies
   CE1
 -----------------GTTTTGAGTTTTTTGTTT--------------------------------------------------------------------------181
celeganstgctagtttgtttcgaaGTTTTGAGTTTTTTGTTTcaattcgttttgtggtgccgaaaatgcacaaaaaattgaaaaacggatttgctgaaaatttgaattttgggcaa 
 ************************************************************************************************************* 
celegans((((.......(((.(((((((.(((..((((((((((((..(((((((............))))))))))))))..)))))...))).)))))))))).....)))).1.000 -24.40

celeganschromosome:V:1967403:1967511:1intergenic ## {SimpF: WRM0638aE01 1 fosmid,WRM066aF01 1 fosmid,WRM0630cF10 1 fosmid}


block7636 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.158nono0.31/0.3126/26/0.000.0
0.0
1
0
1
0
12
6
3arm
1
nd
0.19
2
11nana
  readsmiRBase family seed
seed-----------------------------------------------------------------UUCACAA------------------------------1novel
  lencloning frequencies
   CE1
 ----------------------------------------------------------------GTTCACAAGGATTTTATATGTTCTGT------------261
celegansctcgctttgatactcaaacagaaaaaatcaaaaattttttgatctttattcattatacaatttaGTTCACAAGGATTTTATATGTTCTGTttatgaagacga 
 ****************************************************************************************************** 
celegans.(((((((.(((....(((((((...((..((((((((((((.((..(((........)))..)).))).)))))))))..)).)))))))))))))).)))0.840 -15.20

celeganschromosome:X:1643998:1644099:-1intergenic ## {SimpF: WRM0619cB06 -1 fosmid,WRM0637cC01 -1 fosmid,WRM0635bH10 -1 fosmid,WRM0634dF02 -1 fosmid,WRM061aG07 -1 fosmid,WRM0626bE10 -1 fosmid,WRM0626cF12 -1 fosmid,WRM0624cB10 -1 fosmid,WRM0641aB04 -1 fosmid,WRM0614bA02 -1 fosmid}


block7894 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.186nono0.33/0.3318/18/0.000.0
0.0
1
0
1
0
29
0
3arm
1
nd
0.17
3
11nana
  readsmiRBase family seed
seed-------------------------------------------------------------AUGAGAA---------------------------------------1novel
  lencloning frequencies
   CE1
 ------------------------------------------------------------GATGAGAAGGACATTTTT-----------------------------181
celegansgattaaagcagtcaggcaagtgttttgagaaattccttcctaataagttgttcatttcaaGATGAGAAGGACATTTTTttaaaactatctcaacagtgacattaatt 
 *********************************************************************************************************** 
celegans..........((((....((.(((((((((((.((((((............(((((....)))))))))))...)))))))))))...))......)))).......0.590 -19.40

celeganschromosome:X:12216110:12216216:-1intergenic ## {SimpF: WRM0620dA11 -1 fosmid,WRM0615bE12 -1 fosmid}


block8093 [novel_lenNOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.258nono0.47/0.4719/19/0.000.0
0.0
1
0
1
0
16
6
5arm
1
nd
0.16
2
11nana
  readsmiRBase family seed
seed-----------------UAGAGGA------------------------------------------------------------------------------------------------1novel
  lencloning frequencies
   CE1
 ----------------GTAGAGGAACAAAGAGTGG-------------------------------------------------------------------------------------191
celegansacgattgaaatcctaaGTAGAGGAACAAAGAGTGGaaagacaactactatctaattataaattattttcattcgtcatttcgattttttgtctttattgcctgataattggaaaagattg 
 ************************************************************************************************************************ 
celegans.(((((....(((..(((((((..(((((((((.(((((((................................))).)))).))))))))))))))))...........)))...)))))0.530 -19.47

celeganschromosome:X:17253869:17253988:-1intergenic ## {SimpF: WRM0627dB01 -1 fosmid,WRM0639dB09 -1 fosmid,WRM0611aD03 -1 fosmid}


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