logoC.briggsae small RNAs


miR expression

block1488_cand

block1488_cand

Cloning frequencies
absoluteAF16
block1488_cand 5arm3
normalizedAF16
block1488_cand 5arm0.008
block1488_cand relative cloning frequencies

block1488 [novel_cloningOK_shortStem_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.004nono0.57/0.6221/23/1.000.0
0.0
4
0
1
0
1
0
5arm_loop
2
nd
0.19
1
61nana
Families
Member of family novel2 (seed CUCGGUC): block1486_novel, block1488_cand
block1488 hairpin
  readsmiRBase family seed
seed     --CUCGGUC----------------------------------------------------------------     6novel
  lencloning frequencies
   AF16
      -ACTCGGTC-CGGAGTCAATGGG--------------------------------------------------     214
      -ACTCGGTC-CGGAGTCAATGGGT--T----------------------------------------------     231
      -ACTCGGTC-CGGAGTCAATGGGT-------------------------------------------------     221
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

cbriggsaechromosome:chrIII:9059007:9059073:-1Opposite_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}
cremaneichromosome:chrUn:29149272:29149378:-1Same_strand|Intronic_coding|NM_000444 ## Same_strand|Boundary_coding|NM_062137
cjaponicachromosome:chrUn:67701758:67701864:-1Opposite_strand|Intronic_coding|NM_005183


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