miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
20846 5' -50.6 NC_004689.1 + 27362 0.66 0.968238
Target:  5'- aGCAACAgGUcUCGGaugucCGCAAUGaACACGg -3'
miRNA:   3'- -UGUUGUgCA-AGCU-----GCGUUGCgUGUGC- -5'
20846 5' -50.6 NC_004689.1 + 37479 0.66 0.961126
Target:  5'- gACGuguGCGCGUgCGGC-CAuACGCGCGCa -3'
miRNA:   3'- -UGU---UGUGCAaGCUGcGU-UGCGUGUGc -5'
20846 5' -50.6 NC_004689.1 + 8705 0.66 0.957186
Target:  5'- uACGAUgaguCGUagauUCGACGCgAACGUAUGCGc -3'
miRNA:   3'- -UGUUGu---GCA----AGCUGCG-UUGCGUGUGC- -5'
20846 5' -50.6 NC_004689.1 + 7922 0.66 0.95033
Target:  5'- cCAGCGCGUUUGACcucguuuuugacgguGCGACGacgACGCu -3'
miRNA:   3'- uGUUGUGCAAGCUG---------------CGUUGCg--UGUGc -5'
20846 5' -50.6 NC_004689.1 + 41323 0.66 0.948508
Target:  5'- gACAACGCGUacugcaacgugUUGuCGCAgACGguCGCGg -3'
miRNA:   3'- -UGUUGUGCA-----------AGCuGCGU-UGCguGUGC- -5'
20846 5' -50.6 NC_004689.1 + 12394 0.67 0.933434
Target:  5'- uGCGG-AUGUUCG-CGCGACGaACGCGg -3'
miRNA:   3'- -UGUUgUGCAAGCuGCGUUGCgUGUGC- -5'
20846 5' -50.6 NC_004689.1 + 54667 0.67 0.933434
Target:  5'- gGCGACGg--UUGAaGCGGCGCACugGg -3'
miRNA:   3'- -UGUUGUgcaAGCUgCGUUGCGUGugC- -5'
20846 5' -50.6 NC_004689.1 + 29107 0.68 0.909412
Target:  5'- aGCgAGCACGUcgcCGugGaCGACugGCACACGa -3'
miRNA:   3'- -UG-UUGUGCAa--GCugC-GUUG--CGUGUGC- -5'
20846 5' -50.6 NC_004689.1 + 42185 0.68 0.895729
Target:  5'- uGCAGCAUGUcuuggaccggaUCGGC-CuGCGCugGCGg -3'
miRNA:   3'- -UGUUGUGCA-----------AGCUGcGuUGCGugUGC- -5'
20846 5' -50.6 NC_004689.1 + 19096 0.68 0.895729
Target:  5'- aGCAACAgGUUCGAaaaccacacCAACGCACGg- -3'
miRNA:   3'- -UGUUGUgCAAGCUgc-------GUUGCGUGUgc -5'
20846 5' -50.6 NC_004689.1 + 10903 0.68 0.888481
Target:  5'- aGCAACGCGUcgUUGGCGUcgUGcCACugGu -3'
miRNA:   3'- -UGUUGUGCA--AGCUGCGuuGC-GUGugC- -5'
20846 5' -50.6 NC_004689.1 + 20073 0.69 0.880966
Target:  5'- uGCuGCAaaaucUCGGCgGCAACGCGCACa -3'
miRNA:   3'- -UGuUGUgca--AGCUG-CGUUGCGUGUGc -5'
20846 5' -50.6 NC_004689.1 + 28866 0.69 0.880966
Target:  5'- uCGGCACGUUCGuCGCcGugGCAgcCACc -3'
miRNA:   3'- uGUUGUGCAAGCuGCG-UugCGU--GUGc -5'
20846 5' -50.6 NC_004689.1 + 36459 0.69 0.8802
Target:  5'- cGCGugGCGcUCG-CGCGuggaaucgcauccGCGCACGCa -3'
miRNA:   3'- -UGUugUGCaAGCuGCGU-------------UGCGUGUGc -5'
20846 5' -50.6 NC_004689.1 + 39370 0.69 0.84837
Target:  5'- cCGGCugG-UCGGCaauCAACGCGCGCa -3'
miRNA:   3'- uGUUGugCaAGCUGc--GUUGCGUGUGc -5'
20846 5' -50.6 NC_004689.1 + 50563 0.7 0.821476
Target:  5'- uGCGAUGCGcUCGACcUGACGgGCACGg -3'
miRNA:   3'- -UGUUGUGCaAGCUGcGUUGCgUGUGC- -5'
20846 5' -50.6 NC_004689.1 + 8279 0.7 0.812093
Target:  5'- --uACGCGUUCcuGACGCuuGCGCuCACGg -3'
miRNA:   3'- uguUGUGCAAG--CUGCGu-UGCGuGUGC- -5'
20846 5' -50.6 NC_004689.1 + 48875 0.7 0.799609
Target:  5'- gGCGGCACGUgCGGCcauccgcugagccuGCucCGCGCACGc -3'
miRNA:   3'- -UGUUGUGCAaGCUG--------------CGuuGCGUGUGC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.