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
23359 3' -55.2 NC_005259.1 + 8213 0.66 0.769122
Target:  5'- uCGGGCAaCAgcgagCGUGCGguggugcCGACACCc- -3'
miRNA:   3'- cGCCCGUaGUa----GCACGU-------GCUGUGGua -5'
23359 3' -55.2 NC_005259.1 + 21181 0.68 0.621096
Target:  5'- uCGGGU--CAUCG-GCGCGAgCACCAa -3'
miRNA:   3'- cGCCCGuaGUAGCaCGUGCU-GUGGUa -5'
23359 3' -55.2 NC_005259.1 + 8949 0.68 0.63201
Target:  5'- gGUGGGCG-CGcCGUGgACGgGCACCGUg -3'
miRNA:   3'- -CGCCCGUaGUaGCACgUGC-UGUGGUA- -5'
23359 3' -55.2 NC_005259.1 + 44953 0.68 0.633101
Target:  5'- aGCGGGCAgugcggUCAUCGggaugccgagggccgGUGCGACuGCCGa -3'
miRNA:   3'- -CGCCCGU------AGUAGCa--------------CGUGCUG-UGGUa -5'
23359 3' -55.2 NC_005259.1 + 57288 0.68 0.642923
Target:  5'- -gGuGGCAccUCGUaGUGCACGACAUCGa -3'
miRNA:   3'- cgC-CCGU--AGUAgCACGUGCUGUGGUa -5'
23359 3' -55.2 NC_005259.1 + 68704 0.67 0.675566
Target:  5'- gGCGGGCAgcgCGUCGgUGCcCGAgaacugggguCGCCGc -3'
miRNA:   3'- -CGCCCGUa--GUAGC-ACGuGCU----------GUGGUa -5'
23359 3' -55.2 NC_005259.1 + 18333 0.67 0.675566
Target:  5'- cCGGuGCGU--UCGUGguCGACGCCGa -3'
miRNA:   3'- cGCC-CGUAguAGCACguGCUGUGGUa -5'
23359 3' -55.2 NC_005259.1 + 58813 0.67 0.697142
Target:  5'- gGCGGGC-UCG-CGcUGCuCGGCACCc- -3'
miRNA:   3'- -CGCCCGuAGUaGC-ACGuGCUGUGGua -5'
23359 3' -55.2 NC_005259.1 + 42385 0.67 0.70464
Target:  5'- gGCGGGCAggccgguccaugagUCGUCGUacucgauggcgGUGCGGCAgCCGa -3'
miRNA:   3'- -CGCCCGU--------------AGUAGCA-----------CGUGCUGU-GGUa -5'
23359 3' -55.2 NC_005259.1 + 12307 0.69 0.610192
Target:  5'- uGCGGGCAaUGUCG-GUGCG-CACCGc -3'
miRNA:   3'- -CGCCCGUaGUAGCaCGUGCuGUGGUa -5'
23359 3' -55.2 NC_005259.1 + 67400 0.69 0.588449
Target:  5'- cGgGGGUGUCA-CGgGC-CGACACCAUc -3'
miRNA:   3'- -CgCCCGUAGUaGCaCGuGCUGUGGUA- -5'
23359 3' -55.2 NC_005259.1 + 32584 0.69 0.556125
Target:  5'- uUGGGCAgCGguuuacgcgCGUGCAgGACGCCGa -3'
miRNA:   3'- cGCCCGUaGUa--------GCACGUgCUGUGGUa -5'
23359 3' -55.2 NC_005259.1 + 58728 0.73 0.378818
Target:  5'- cGgGGGUGUCGUUG-GCAcCGGCACCGg -3'
miRNA:   3'- -CgCCCGUAGUAGCaCGU-GCUGUGGUa -5'
23359 3' -55.2 NC_005259.1 + 23473 0.71 0.443472
Target:  5'- gGCcucGGCAUUGUCgGUGC-CGACGCCAUg -3'
miRNA:   3'- -CGc--CCGUAGUAG-CACGuGCUGUGGUA- -5'
23359 3' -55.2 NC_005259.1 + 14043 0.71 0.453208
Target:  5'- aGCGGcagcGCAUCGUCG-GCgACGAgACCAg -3'
miRNA:   3'- -CGCC----CGUAGUAGCaCG-UGCUgUGGUa -5'
23359 3' -55.2 NC_005259.1 + 51667 0.71 0.453208
Target:  5'- cGCGGGCG-CGUCGgGCACgGGCGCgCGa -3'
miRNA:   3'- -CGCCCGUaGUAGCaCGUG-CUGUG-GUa -5'
23359 3' -55.2 NC_005259.1 + 4555 0.71 0.480058
Target:  5'- uGCGGGCAcgaggucacgccgaUCGUCG-GCACGuuccccgacaACACCGc -3'
miRNA:   3'- -CGCCCGU--------------AGUAGCaCGUGC----------UGUGGUa -5'
23359 3' -55.2 NC_005259.1 + 39297 0.71 0.48309
Target:  5'- ---cGCGUCAUCGaagUGCACGACGCCc- -3'
miRNA:   3'- cgccCGUAGUAGC---ACGUGCUGUGGua -5'
23359 3' -55.2 NC_005259.1 + 34913 0.7 0.513888
Target:  5'- uCGGGCAUCAcacugcugccUCGgGCGCGaACGCCu- -3'
miRNA:   3'- cGCCCGUAGU----------AGCaCGUGC-UGUGGua -5'
23359 3' -55.2 NC_005259.1 + 50285 0.7 0.53486
Target:  5'- gGCGGGaa-CGUCGUGCACGcucuGCCAc -3'
miRNA:   3'- -CGCCCguaGUAGCACGUGCug--UGGUa -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.