miRNA display CGI


Results 1 - 14 of 14 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
16702 3' -55.1 NC_004156.1 + 122791 0.66 0.975207
Target:  5'- gGUACUGGUacugGUACUG-GCACUGGuGCu -3'
miRNA:   3'- -CAUGACCAcg--CAUGGCaCGUGGCU-CG- -5'
16702 3' -55.1 NC_004156.1 + 197865 0.66 0.973676
Target:  5'- -gGCUGGUGCGUgACCaaacaguuggacaaGUGCcccauguguagaggGCCGAcuGCa -3'
miRNA:   3'- caUGACCACGCA-UGG--------------CACG--------------UGGCU--CG- -5'
16702 3' -55.1 NC_004156.1 + 140155 0.66 0.969838
Target:  5'- -aGgUGGccaaagaguUGCGUcCCGUGCACaUGGGCu -3'
miRNA:   3'- caUgACC---------ACGCAuGGCACGUG-GCUCG- -5'
16702 3' -55.1 NC_004156.1 + 25218 0.66 0.969838
Target:  5'- aGUAgaGGUGCuGggaACaauaGUGUGCCGAGUa -3'
miRNA:   3'- -CAUgaCCACG-Ca--UGg---CACGUGGCUCG- -5'
16702 3' -55.1 NC_004156.1 + 16061 0.66 0.963686
Target:  5'- aGUGCU-GUGCGguaGCaucUGCACCGAGg -3'
miRNA:   3'- -CAUGAcCACGCa--UGgc-ACGUGGCUCg -5'
16702 3' -55.1 NC_004156.1 + 158283 0.67 0.956706
Target:  5'- aGUACUGGUaGCacuaguaguaGUAauGUGCACCGAa- -3'
miRNA:   3'- -CAUGACCA-CG----------CAUggCACGUGGCUcg -5'
16702 3' -55.1 NC_004156.1 + 63503 0.68 0.929988
Target:  5'- -aGCUuGUGCG-ACUGUGCaacaaugACCGAGUa -3'
miRNA:   3'- caUGAcCACGCaUGGCACG-------UGGCUCG- -5'
16702 3' -55.1 NC_004156.1 + 22990 0.68 0.925331
Target:  5'- aGUAUUGGUauucuacaaGUauccUGCCcUGCACCGAGCa -3'
miRNA:   3'- -CAUGACCA---------CGc---AUGGcACGUGGCUCG- -5'
16702 3' -55.1 NC_004156.1 + 207218 0.68 0.914318
Target:  5'- cUACUGGcGcCGUACCGaGUGCCcAGCa -3'
miRNA:   3'- cAUGACCaC-GCAUGGCaCGUGGcUCG- -5'
16702 3' -55.1 NC_004156.1 + 114504 0.69 0.875896
Target:  5'- -gACUGcGgacaagGCaaagGUGCCGUGCACCG-GCu -3'
miRNA:   3'- caUGAC-Ca-----CG----CAUGGCACGUGGCuCG- -5'
16702 3' -55.1 NC_004156.1 + 123163 0.71 0.795887
Target:  5'- gGUGgUGGUGCGUuuACCcuuGUGCACUcucuuggguuuGAGCg -3'
miRNA:   3'- -CAUgACCACGCA--UGG---CACGUGG-----------CUCG- -5'
16702 3' -55.1 NC_004156.1 + 80517 0.72 0.768781
Target:  5'- cUACUGGUGCGagUACUG-GC-CCaGAGCa -3'
miRNA:   3'- cAUGACCACGC--AUGGCaCGuGG-CUCG- -5'
16702 3' -55.1 NC_004156.1 + 44698 0.74 0.662181
Target:  5'- aUGCcGGUGCuugagGUGCUGUGCACaGAGCu -3'
miRNA:   3'- cAUGaCCACG-----CAUGGCACGUGgCUCG- -5'
16702 3' -55.1 NC_004156.1 + 213901 1.11 0.004181
Target:  5'- aGUACUGGUGCGUACCGUGCACCGAGCc -3'
miRNA:   3'- -CAUGACCACGCAUGGCACGUGGCUCG- -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.