miRNA display CGI


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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
28291 5' -38.3 NC_005902.1 + 5212 0.66 1
Target:  5'- -aGUgaGUAUAUcGCUUAGGUguuaggUAGAa -3'
miRNA:   3'- aaCAaaCAUAUAuCGAAUCCAa-----AUUU- -5'
28291 5' -38.3 NC_005902.1 + 27700 0.66 1
Target:  5'- cUUGUUaGUAUAUAGCagccUAGGUa---- -3'
miRNA:   3'- -AACAAaCAUAUAUCGa---AUCCAaauuu -5'
28291 5' -38.3 NC_005902.1 + 147629 0.66 1
Target:  5'- -aGUgaGUGUAUAGCUUAGaugUUAAu -3'
miRNA:   3'- aaCAaaCAUAUAUCGAAUCca-AAUUu -5'
28291 5' -38.3 NC_005902.1 + 163428 0.66 1
Target:  5'- ------aUAUAUAGCUUAGGUg---- -3'
miRNA:   3'- aacaaacAUAUAUCGAAUCCAaauuu -5'
28291 5' -38.3 NC_005902.1 + 104850 0.66 1
Target:  5'- cUUGcUUGUuacgcucauAUAUAGCUUAGGUa---- -3'
miRNA:   3'- -AACaAACA---------UAUAUCGAAUCCAaauuu -5'
28291 5' -38.3 NC_005902.1 + 6220 0.66 1
Target:  5'- gUUGUgaaugaGUAUAUAGCUUAGuugUUAAAg -3'
miRNA:   3'- -AACAaa----CAUAUAUCGAAUCca-AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 27920 0.66 1
Target:  5'- ---cUUGUAUAUAGCUUaaguauuaaAGGUUa--- -3'
miRNA:   3'- aacaAACAUAUAUCGAA---------UCCAAauuu -5'
28291 5' -38.3 NC_005902.1 + 23505 0.66 1
Target:  5'- ---gUUGUAUAUAGCUUaaguguuaaaGGGUUa--- -3'
miRNA:   3'- aacaAACAUAUAUCGAA----------UCCAAauuu -5'
28291 5' -38.3 NC_005902.1 + 154951 0.66 1
Target:  5'- ---cUUGUucAUAGCUUGGGUgUUAAAa -3'
miRNA:   3'- aacaAACAuaUAUCGAAUCCA-AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 107183 0.66 1
Target:  5'- -----aGUAUAUAGCUUaaGGGUUa--- -3'
miRNA:   3'- aacaaaCAUAUAUCGAA--UCCAAauuu -5'
28291 5' -38.3 NC_005902.1 + 87103 0.66 1
Target:  5'- ------uUAUAUAGCUUAGGggUUAAAg -3'
miRNA:   3'- aacaaacAUAUAUCGAAUCCa-AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 122672 0.66 1
Target:  5'- -aGUgaGUGUAUAGCUUAGaGaugUUAAAg -3'
miRNA:   3'- aaCAaaCAUAUAUCGAAUC-Ca--AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 93877 0.66 1
Target:  5'- -aGUaaGUAUAUAGCUUAGuugUUAAAa -3'
miRNA:   3'- aaCAaaCAUAUAUCGAAUCca-AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 155244 0.66 1
Target:  5'- -----cGUAUAUAGCUUAGaugUUAAAg -3'
miRNA:   3'- aacaaaCAUAUAUCGAAUCca-AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 107830 0.66 1
Target:  5'- -----cGUAUAUAGCUUAGaugUUAAAg -3'
miRNA:   3'- aacaaaCAUAUAUCGAAUCca-AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 39451 0.66 1
Target:  5'- -----aGUAUAUAGCUUAGaugUUAGAa -3'
miRNA:   3'- aacaaaCAUAUAUCGAAUCca-AAUUU- -5'
28291 5' -38.3 NC_005902.1 + 157209 0.66 1
Target:  5'- ------aUAUAUAGCUUAGGUa---- -3'
miRNA:   3'- aacaaacAUAUAUCGAAUCCAaauuu -5'
28291 5' -38.3 NC_005902.1 + 131703 0.66 1
Target:  5'- ------aUAUAUAGCUUAGGUg---- -3'
miRNA:   3'- aacaaacAUAUAUCGAAUCCAaauuu -5'
28291 5' -38.3 NC_005902.1 + 36357 0.66 1
Target:  5'- ------aUAUAUAGCUUAGGUa---- -3'
miRNA:   3'- aacaaacAUAUAUCGAAUCCAaauuu -5'
28291 5' -38.3 NC_005902.1 + 38448 0.66 1
Target:  5'- --aUUUaUAUAUAGCUUAGGUg---- -3'
miRNA:   3'- aacAAAcAUAUAUCGAAUCCAaauuu -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.