miRNA display CGI


Results 1 - 20 of 27 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
18240 3' -55.2 NC_004680.1 + 41140 0.66 0.793513
Target:  5'- -aCGGCGAaaucauCGACcAgGAGGUgGCCGAg -3'
miRNA:   3'- caGCUGCU------GCUGcUgCUCCAaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 7424 0.66 0.783881
Target:  5'- uGUCGAguaUGACGACGACGGccacuuGGUgcggcauguggGCCGc -3'
miRNA:   3'- -CAGCU---GCUGCUGCUGCU------CCAa----------CGGCu -5'
18240 3' -55.2 NC_004680.1 + 44669 0.66 0.768159
Target:  5'- -gUGACGAUGACGugGccgggauaggacaccAGGgcGUCGAu -3'
miRNA:   3'- caGCUGCUGCUGCugC---------------UCCaaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 23323 0.67 0.743943
Target:  5'- -cCGACGaACGugccCGACGAGcugGCCGAc -3'
miRNA:   3'- caGCUGC-UGCu---GCUGCUCcaaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 40308 0.67 0.743943
Target:  5'- --aGAUGaACGGCGACGcuguuguuGGGUUGCUGc -3'
miRNA:   3'- cagCUGC-UGCUGCUGC--------UCCAACGGCu -5'
18240 3' -55.2 NC_004680.1 + 11904 0.67 0.743943
Target:  5'- aGUCGcGCGGCGACuGCccgGGGGUUGCaGAc -3'
miRNA:   3'- -CAGC-UGCUGCUGcUG---CUCCAACGgCU- -5'
18240 3' -55.2 NC_004680.1 + 16249 0.67 0.730555
Target:  5'- --aGACGACGGCGACGGugcaguuccgcaacGG-UGCCc- -3'
miRNA:   3'- cagCUGCUGCUGCUGCU--------------CCaACGGcu -5'
18240 3' -55.2 NC_004680.1 + 34476 0.67 0.717007
Target:  5'- aGUCGGCGAugcUGACGAucgcccacgugcagcCGGGGgaGCUGGg -3'
miRNA:   3'- -CAGCUGCU---GCUGCU---------------GCUCCaaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 26269 0.67 0.71281
Target:  5'- -cUGAUGGCGACGcGgGAGGU-GUCGAu -3'
miRNA:   3'- caGCUGCUGCUGC-UgCUCCAaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 19253 0.67 0.702265
Target:  5'- aUCGACGACGGCGggcuauccgGCGAcguguuguuucuGGUgGCCGc -3'
miRNA:   3'- cAGCUGCUGCUGC---------UGCU------------CCAaCGGCu -5'
18240 3' -55.2 NC_004680.1 + 42692 0.68 0.680989
Target:  5'- -cCG-CGGCGACGGUGGGGUgcaGUCGAa -3'
miRNA:   3'- caGCuGCUGCUGCUGCUCCAa--CGGCU- -5'
18240 3' -55.2 NC_004680.1 + 12571 0.68 0.663836
Target:  5'- aUCGGCaugGACGGCGGCGGugcgcucggaauggcGGUgcagGCCGGc -3'
miRNA:   3'- cAGCUG---CUGCUGCUGCU---------------CCAa---CGGCU- -5'
18240 3' -55.2 NC_004680.1 + 50050 0.68 0.648765
Target:  5'- uGUCGAucuCGGCGGCGACGuGGgccUCGAa -3'
miRNA:   3'- -CAGCU---GCUGCUGCUGCuCCaacGGCU- -5'
18240 3' -55.2 NC_004680.1 + 16264 0.68 0.637982
Target:  5'- uUCGAUGuuguACGGCGcCGAGGcUGUCGGa -3'
miRNA:   3'- cAGCUGC----UGCUGCuGCUCCaACGGCU- -5'
18240 3' -55.2 NC_004680.1 + 58562 0.68 0.637982
Target:  5'- uGUCuGCGugGuCGACGAGGcuggGCCa- -3'
miRNA:   3'- -CAGcUGCugCuGCUGCUCCaa--CGGcu -5'
18240 3' -55.2 NC_004680.1 + 28343 0.69 0.627193
Target:  5'- uUCGACGGCGcgggcgguguCGGCGucGggGCCGAu -3'
miRNA:   3'- cAGCUGCUGCu---------GCUGCucCaaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 33315 0.69 0.605637
Target:  5'- gGUUGugGAUGGCGGCccgguagucguuGAGGacGCCGGg -3'
miRNA:   3'- -CAGCugCUGCUGCUG------------CUCCaaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 19552 0.69 0.584169
Target:  5'- gGUCGAgggUGAUGAUGGCGuuGUcGCCGAa -3'
miRNA:   3'- -CAGCU---GCUGCUGCUGCucCAaCGGCU- -5'
18240 3' -55.2 NC_004680.1 + 36501 0.69 0.573488
Target:  5'- uGUUGGCGAUGACGGaGAuGUUcGCCGAc -3'
miRNA:   3'- -CAGCUGCUGCUGCUgCUcCAA-CGGCU- -5'
18240 3' -55.2 NC_004680.1 + 5892 0.7 0.562853
Target:  5'- -cCGAUGACGuugcuGCGGCGcuuGGaUUGCCGAg -3'
miRNA:   3'- caGCUGCUGC-----UGCUGCu--CC-AACGGCU- -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.