logoC.briggsae small RNAs

miR-Intess™


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cbr-mir-50

cbr-mir-50

Cloning frequencies
absoluteAF16
cbr-mir-50 5arm223
normalizedAF16
cbr-mir-50 5arm0.581
cbr-mir-50 relative cloning frequencies

block279 (miRBase cbr-mir-50) [miRNAknown_cloningHIGH_randfoldOK]

Hairpin parameters
miRNArandfoldRNArepGC min/maxlen min/max/mir_range5'var3'varreadsreads editedlibslibs editedbase distanceloop distancepositionlocationsexon distanceunpairedmax bulgetotal readstotal libsdicerdrosha
miRBase cbr-mir-500.001nono0.26/0.3619/24/0.940.0
0.0
138
0
1
0
17
8
5arm
1
nd
0.08
2
2231nana
Families
Member of family miR-50/62/90 (seed GAUAUGU): cel-mir-90, cbr-mir-50, cbr-mir-90, cbr-mir-62
block279 hairpin
  readsmiRBase family seed
seed     ------------------GAUAUGU-------------------------------------------------------------------------------------     222miR-50/62/90
seed     -------------------AUAUGU-C-----------------------------------------------------------------------------------     1novel
  lencloning frequencies
   AF16
cbr-miR-50     -----------------TGATATGT-C----TGATATTCTTGGGTT----------------------------------------------------------------     24138
      -----------------TGATATGT-C----TGATATTCTTGG-------------------------------------------------------------------     2127
      -----------------TGATATGT-C----TGATATTCTTGGG------------------------------------------------------------------     2226
      -----------------TGATATGT-C----TGATATTCTTGGGT-----------------------------------------------------------------     2318
      -----------------TGATATGT-C----TGATATTCTT---------------------------------------------------------------------     1913
      ------------------GATATGT-C----TGATATTCTTGGGTT----------------------------------------------------------------     231
cbriggsae     TTCCACCCACCGGCCGCTGATATGT-C----TGATATTCTTGGGTTATCTGATAATGATTGTTGTAACTCAAG----TATTAGACGTATCGACGGCCGGCTGGGTTGGAA      
cremanei     -----------------TGATATGT-C----TGGTATTCTTGGGTTC-GATACTCTGAAAAACG-AACCAAAG----TAGCAGACGTATCG-------------------      
celegans     -----------------TGATATGT-C----TGGTATTCTTGGGTTT--GAACTTCCAGCGTTG-AACCCGCA----TATTAGACGTATCG-------------------      
cbrenneri     TCTCACCCACCGGCCGCTGATATGT-C----TGGTATTCTTGGGTTC----ATTCCTTACTCTG-AACCAGTT----TATTAGACGTATCGACGGCCGGATCGGGTGAGA      
cjaponica     -----------------TGATATGT-TGAAATAGCGAGTTTGGCTTG-CAGCTATAAATAGCTGCAAGCCGAAACTGTTTCATCAATTTCA-------------------      
ppacificus     -----------------TGATATGTGT----CATTGAATTTGGCTTT-CTAAGTGCATCCGGAA-AAGTGGAA----TGAATTATATATCG-------------------      
                       ********              **** **                   **          *        * **                          
 ------------------------------ -    ------------------------------------------    --------------------------------------NM_174569
 ------------------------------ -    ------------------------------------------    --------------------------------------NM_174283
 ------------------------------ -    ------------------------------------------    --------------------------------------NM_002035
 ------------------------------ -    ------------------------------------------    --------------------------------------NM_177366
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_001107428
 ------------------------------ -    ------------------------------------------    --------------------------------------NM_053878
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_008665
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_058481
 ------------------------------ -    ------------------------------------------    --------------------------------------NM_010301
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_204523
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_139981
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_001113428
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_058485
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_006289
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_011602
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_015059
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_001081242
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_001039025
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_001009560
 ++++++++++++++++++++++++++++++ +    ++++++++++++++++++++++++++++++++++++++++++    ++++++++++++++++++++++++++++++++++++++NM_001123412
cbriggsae     .(((((((((((((((.(((((((( (    (((((..((((((((((..((((.....))))))))))))))    )))))))))))))).))))))).))))).))).     1.000 -57.00
cremanei                      .((((((( (    ((.((((....((((( (.............)) ))))..))    )).)))))))))).                        1.000 -25.32
celegans                      .((((((( (    ((((((...(((((((  .(((.......)))) )))))).)    ))))))))))))).                        1.000 -25.40
cbrenneri     ((((((((.(((((((.(((((((( (    (((((..((..(((((    (..........)) ))))))..    )))))))))))))).)))))))...))))))))     1.000 -55.00
cjaponica                      .((..((. ((((((((....((((((((( ((((((....))))))))))))))).)))))))).))...)).                        1.000 -34.60
ppacificus                      .((((((((.    ......((((.((((( ((..........)))) ).)).)))    )....)))))))).                        0.648 -11.90

cbriggsaechromosome:chrI:2124810:2124910:1Opposite_strand|Intronic_non-coding|NM_174569|PABPN1 ## Same_strand|Intronic_non-coding|NM_001107428|Zfp612 ## Opposite_strand|Intronic_coding|NM_053878|Cplx2 ## Same_strand|Intronic_coding|NM_008665|Myt1 ## {Repeats: no} ## {MIR: cbr-mir-50}
cremaneichromosome:chrUn:17804059:17804199:-1Same_strand|Intronic_coding|NM_001009560 ## Same_strand|Boundary_coding|NM_058485
celeganschromosome:chrI:1738575:1738715:1Same_strand|Intronic_coding|Y71G12B.11a ## {MIR: cel-mir-50}
cbrennerichromosome:chrUn:31668280:31668375:-1Opposite_strand|Intronic_coding|NM_203889 ## Same_strand|Intronic_coding|NM_001113428
cjaponicachromosome:chrUn:40887817:40887957:1intergenic
ppacificuschromosome:chrUn:63058887:63059027:-1intergenic


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