logoC.briggsae small RNAs


miR expression

block1560_cand

block1560_cand

Cloning frequencies
absoluteAF16
block1560_cand 5arm1
normalizedAF16
block1560_cand 5arm0.003
block1560_cand relative cloning frequencies

block1560 [novel_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
no0.001nono0.43/0.4321/21/1.000.0
0.0
2
0
1
0
18
7
5arm
2
nd
0.19
2
21nana
Families
Member of family novel4 (seed ACCCUAC): block434_cand, block1560_cand
block1560 hairpin
  readsmiRBase family seed
seed     -------------------ACCCUAC--------------------------------------------------------------------------------     2novel
  lencloning frequencies
   AF16
      ------------------TACCCTACGTCT--------GAAGAAAGT-----------------------------------------------------------     212
cbriggsae     GAACCTTAAACGGCATGGTACCCTACGTCT--------GAAGAAAGTACAAATGTGTTCTATTGATACTTTCTCAGCCGACGGGTACCGGACATATATGGGTTC--      
cremanei     ----------------GATACCCTACAAATTCCGGGAAGGAAAAACTATAAAT---TCCAGGCGTTTTTCTTTCA------------CGGAT-TATGTGGGGTCTC      
                      * ********   *        * * *** ** ****   * *    * *  * * ***            ****  *** **** **        
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_124925
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_184109
 -----------------------------------        ------------------------------------------------------------------  -----NM_013720
 -----------------------------------        ------------------------------------------------------------------  -----NM_001085471
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_031809
 -----------------------------------        ------------------------------------------------------------------  -----NM_177595
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_031808
 -----------------------------------        ------------------------------------------------------------------  -----NM_204577
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_001102968
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_061965
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_075282
 -----------------------------------        ------------------------------------------------------------------  -----NM_001122952
 +++++++++++++++++++++++++++++++++++        ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++  +++++NM_001108816
 -----------------------------------        ------------------------------------------------------------------  -----NM_005197
 -----------------------------------        ------------------------------------------------------------------  -----NM_010905
 -----------------------------------        ------------------------------------------------------------------  -----NM_001122953
 -----------------------------------        ------------------------------------------------------------------  -----NM_067174
 -----------------------------------        ------------------------------------------------------------------  -----NM_065676
cbriggsae     ((((((.........((((((((..((.((        (.((((((((..((((.....))))..))))))))))).))..)))))))).........))))))       1.000 -36.07
cremanei                     ((.((((((((...((((.(((((((((((.......   .......))))))))))).            )))). ..)))))))).))     1.000 -30.64

cbriggsaechromosome:chrIII:12613939:12614034:-1Same_strand|Intronic_coding|NM_124925|AT5G55430 ## Opposite_strand|Intronic_non-coding|NM_013720|Mga ## Same_strand|Intronic_non-coding|NM_031808|Capn6 ## Opposite_strand|Intronic_coding|NM_065676|C45G9.11 ## {Repeats: no}
cremaneichromosome:chrUn:136399890:136399963:1Opposite_strand|Intronic_coding|NM_001006894 ## Same_strand|Intronic_coding|NM_171181


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