miRNA display CGI


Results 1 - 20 of 22 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
28109 3' -53 NC_005887.1 + 1428 0.66 0.752921
Target:  5'- cGCGGgacaGGaUGUAGC-GCUCGaGCGUCu -3'
miRNA:   3'- -CGUUa---CCaACGUCGuCGAGC-CGUAGc -5'
28109 3' -53 NC_005887.1 + 27838 0.66 0.742047
Target:  5'- cGUcAUGGc-GCucuaccucgccGGCGcGCUCGGCAUCGg -3'
miRNA:   3'- -CGuUACCaaCG-----------UCGU-CGAGCCGUAGC- -5'
28109 3' -53 NC_005887.1 + 18547 0.66 0.742047
Target:  5'- uCGGUGG--GCGGCGGCgcCGGCuUCGc -3'
miRNA:   3'- cGUUACCaaCGUCGUCGa-GCCGuAGC- -5'
28109 3' -53 NC_005887.1 + 19681 0.66 0.708748
Target:  5'- aGCGAUGGUgugacGCuGCAGUUCGauaGCGUg- -3'
miRNA:   3'- -CGUUACCAa----CGuCGUCGAGC---CGUAgc -5'
28109 3' -53 NC_005887.1 + 9713 0.66 0.707623
Target:  5'- aGCGAUcg-UGCAGCAGCUcaacgccCGGCAg-- -3'
miRNA:   3'- -CGUUAccaACGUCGUCGA-------GCCGUagc -5'
28109 3' -53 NC_005887.1 + 39400 0.67 0.674709
Target:  5'- cGCAaccGUGGUcGCGaccGC-GUUCGGCAUCu -3'
miRNA:   3'- -CGU---UACCAaCGU---CGuCGAGCCGUAGc -5'
28109 3' -53 NC_005887.1 + 30439 0.67 0.663258
Target:  5'- gGCGAcgccgaGCGGUacaccgAGCUCGGCAUCGg -3'
miRNA:   3'- -CGUUaccaa-CGUCG------UCGAGCCGUAGC- -5'
28109 3' -53 NC_005887.1 + 37320 0.67 0.651775
Target:  5'- ----cGGUcgucGCAGCAGCgccggcacUGGCAUCGg -3'
miRNA:   3'- cguuaCCAa---CGUCGUCGa-------GCCGUAGC- -5'
28109 3' -53 NC_005887.1 + 11768 0.67 0.651775
Target:  5'- cCGGUGGgaucucgGCGGCGuccucgcuGCUCGGCggcGUCGg -3'
miRNA:   3'- cGUUACCaa-----CGUCGU--------CGAGCCG---UAGC- -5'
28109 3' -53 NC_005887.1 + 41597 0.68 0.640273
Target:  5'- aGCGGcGGcccaggUGCGGCGGC-CGGCG-CGg -3'
miRNA:   3'- -CGUUaCCa-----ACGUCGUCGaGCCGUaGC- -5'
28109 3' -53 NC_005887.1 + 27353 0.68 0.640273
Target:  5'- cGCAGcGGcgcGCAGacgAGCgUCGGCAUCGu -3'
miRNA:   3'- -CGUUaCCaa-CGUCg--UCG-AGCCGUAGC- -5'
28109 3' -53 NC_005887.1 + 11525 0.68 0.628762
Target:  5'- cGCAAcgcGGUcaagcUGauCAGCAGCUCGGCG-CGc -3'
miRNA:   3'- -CGUUa--CCA-----AC--GUCGUCGAGCCGUaGC- -5'
28109 3' -53 NC_005887.1 + 3011 0.68 0.605761
Target:  5'- -gGAUGGUcGCGGCGGUgccgCGGCGc-- -3'
miRNA:   3'- cgUUACCAaCGUCGUCGa---GCCGUagc -5'
28109 3' -53 NC_005887.1 + 26969 0.68 0.605761
Target:  5'- aGCGAcucGGgcGCAGCuuCUCGGCAUUu -3'
miRNA:   3'- -CGUUa--CCaaCGUCGucGAGCCGUAGc -5'
28109 3' -53 NC_005887.1 + 17142 0.69 0.560136
Target:  5'- uGCGAgcGGUcgaGCAGCGGCaugaCGGCGUCc -3'
miRNA:   3'- -CGUUa-CCAa--CGUCGUCGa---GCCGUAGc -5'
28109 3' -53 NC_005887.1 + 12059 0.69 0.548865
Target:  5'- gGCGccGcGcUGCAGCAGgUCGGCAcgUCGc -3'
miRNA:   3'- -CGUuaC-CaACGUCGUCgAGCCGU--AGC- -5'
28109 3' -53 NC_005887.1 + 32445 0.7 0.526546
Target:  5'- gGCGAUcaGGUUGC-GCAGCcacugcgCGGCGUgCGg -3'
miRNA:   3'- -CGUUA--CCAACGuCGUCGa------GCCGUA-GC- -5'
28109 3' -53 NC_005887.1 + 17196 0.7 0.483011
Target:  5'- aGCAcc--UUGC-GUAGCUCGGCGUCGu -3'
miRNA:   3'- -CGUuaccAACGuCGUCGAGCCGUAGC- -5'
28109 3' -53 NC_005887.1 + 6045 0.72 0.392138
Target:  5'- -gGGUGGUgcuggugGCAGCGGCgCGGCAcUCa -3'
miRNA:   3'- cgUUACCAa------CGUCGUCGaGCCGU-AGc -5'
28109 3' -53 NC_005887.1 + 3866 0.72 0.382745
Target:  5'- aCGAUGuGUacgGCGGCAGCcCGGCAUaCGa -3'
miRNA:   3'- cGUUAC-CAa--CGUCGUCGaGCCGUA-GC- -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.