miRNA display CGI


Results 1 - 20 of 25 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
16345 5' -60.6 NC_004084.1 + 46572 0.66 0.514433
Target:  5'- uCGGCAUCggcaUCGCG--GCGAUCGUCGu -3'
miRNA:   3'- cGCCGUGG----AGCGCcuCGCUGGCAGCu -5'
16345 5' -60.6 NC_004084.1 + 39836 0.66 0.504508
Target:  5'- aUGGCGCUcgaguccaUCgGCGGccgcGGCG-CCGUCGAg -3'
miRNA:   3'- cGCCGUGG--------AG-CGCC----UCGCuGGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 30592 0.66 0.504508
Target:  5'- cGUG--ACCUCGCGGAcGCcGCgGUCGAu -3'
miRNA:   3'- -CGCcgUGGAGCGCCU-CGcUGgCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 48065 0.66 0.488805
Target:  5'- aCGGCGCUgcacaccgUCGCGGGgcuagaagacgaaccGCuGACCGUCa- -3'
miRNA:   3'- cGCCGUGG--------AGCGCCU---------------CG-CUGGCAGcu -5'
16345 5' -60.6 NC_004084.1 + 22875 0.66 0.482007
Target:  5'- gGCGGCAcucgccgccgagguCCUCGaucacgcgcaGGAugucccacucGCGACCGUUGGu -3'
miRNA:   3'- -CGCCGU--------------GGAGCg---------CCU----------CGCUGGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 21825 0.66 0.474295
Target:  5'- cGCGGUucacagagaacucGCCaUGCGGAGUacuGACCGuaccUCGAg -3'
miRNA:   3'- -CGCCG-------------UGGaGCGCCUCG---CUGGC----AGCU- -5'
16345 5' -60.6 NC_004084.1 + 56432 0.66 0.465692
Target:  5'- aGCGGCACCgUCGCGaacGA-CGAUC-UCGAc -3'
miRNA:   3'- -CGCCGUGG-AGCGC---CUcGCUGGcAGCU- -5'
16345 5' -60.6 NC_004084.1 + 15144 0.66 0.465692
Target:  5'- aGCGGguacaGCCaUCGCgaGGAGUGAaCGUCGGu -3'
miRNA:   3'- -CGCCg----UGG-AGCG--CCUCGCUgGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 25009 0.66 0.465692
Target:  5'- -aGGC-CCUCGUac-GCGugCGUCGAc -3'
miRNA:   3'- cgCCGuGGAGCGccuCGCugGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 22353 0.66 0.453412
Target:  5'- cGCGGU-CCUCGUcguauccccaccagGGuauGCGGCCGUCc- -3'
miRNA:   3'- -CGCCGuGGAGCG--------------CCu--CGCUGGCAGcu -5'
16345 5' -60.6 NC_004084.1 + 21693 0.67 0.446873
Target:  5'- uGCGaGCACa--GCuGAcgucgGCGACCGUCGAc -3'
miRNA:   3'- -CGC-CGUGgagCGcCU-----CGCUGGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 51202 0.67 0.437623
Target:  5'- uCGGCGCUggCGCGG-GCuacugggcgugGugCGUCGAg -3'
miRNA:   3'- cGCCGUGGa-GCGCCuCG-----------CugGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 28272 0.67 0.428484
Target:  5'- cGCGGCuucgaCUCGUGGAcgggagucucGCGAUCGgggCGGc -3'
miRNA:   3'- -CGCCGug---GAGCGCCU----------CGCUGGCa--GCU- -5'
16345 5' -60.6 NC_004084.1 + 31132 0.67 0.419459
Target:  5'- aGCGGCGCCgcgaucgucaGCGGuucggaccGCGAgaucUCGUCGAg -3'
miRNA:   3'- -CGCCGUGGag--------CGCCu-------CGCU----GGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 6892 0.68 0.393089
Target:  5'- -aGGUACgUCG-GGAucGCGACCGUCu- -3'
miRNA:   3'- cgCCGUGgAGCgCCU--CGCUGGCAGcu -5'
16345 5' -60.6 NC_004084.1 + 5092 0.68 0.393089
Target:  5'- aGCGGUcuGCCcagGCGGgccgccagcuGGcCGACCGUCGAu -3'
miRNA:   3'- -CGCCG--UGGag-CGCC----------UC-GCUGGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 50111 0.68 0.393089
Target:  5'- cGCGGUACUUCGagucgaGGcccGCGAUCGUCc- -3'
miRNA:   3'- -CGCCGUGGAGCg-----CCu--CGCUGGCAGcu -5'
16345 5' -60.6 NC_004084.1 + 16688 0.69 0.328246
Target:  5'- aGCGGgGCCUCGacguuGGucGCGAUCGUCc- -3'
miRNA:   3'- -CGCCgUGGAGCg----CCu-CGCUGGCAGcu -5'
16345 5' -60.6 NC_004084.1 + 18921 0.69 0.320719
Target:  5'- cGCGGCuacuuucaACCUCGaaaccaGGA--GACCGUCGAu -3'
miRNA:   3'- -CGCCG--------UGGAGCg-----CCUcgCUGGCAGCU- -5'
16345 5' -60.6 NC_004084.1 + 39272 0.69 0.306055
Target:  5'- gGUGGUcgucgaucGCgUCGCGGAcuCGAUCGUCGAg -3'
miRNA:   3'- -CGCCG--------UGgAGCGCCUc-GCUGGCAGCU- -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.