miRNA display CGI


Results 1 - 20 of 40 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
23148 3' -61.7 NC_005178.1 + 25921 1.08 0.000141
Target:  5'- gUCACCAGCCUGGCCAGCGGGAUGCCAc -3'
miRNA:   3'- -AGUGGUCGGACCGGUCGCCCUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 3446 0.77 0.041443
Target:  5'- cCACCGGCCUGGCCgagucggcccugguGGUGGucGAUGCCc -3'
miRNA:   3'- aGUGGUCGGACCGG--------------UCGCC--CUACGGu -5'
23148 3' -61.7 NC_005178.1 + 27289 0.75 0.061056
Target:  5'- cCACCAGCgUGGCCGGCaGGccGAUGCg- -3'
miRNA:   3'- aGUGGUCGgACCGGUCG-CC--CUACGgu -5'
23148 3' -61.7 NC_005178.1 + 13389 0.73 0.083815
Target:  5'- aUCGCCAGCCaccaGGUCGGCGGGGaGUa- -3'
miRNA:   3'- -AGUGGUCGGa---CCGGUCGCCCUaCGgu -5'
23148 3' -61.7 NC_005178.1 + 12203 0.73 0.083815
Target:  5'- -gGCCAGCCUGGCUGGCauGGUcGCCAg -3'
miRNA:   3'- agUGGUCGGACCGGUCGccCUA-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 26808 0.72 0.091312
Target:  5'- --uCCAGCCgggacgcgcugUGGCCAGCGGGGcUGUCu -3'
miRNA:   3'- aguGGUCGG-----------ACCGGUCGCCCU-ACGGu -5'
23148 3' -61.7 NC_005178.1 + 33832 0.72 0.105237
Target:  5'- -gGCCAGCUUGGCCuGGCGGuccAUGUCGg -3'
miRNA:   3'- agUGGUCGGACCGG-UCGCCc--UACGGU- -5'
23148 3' -61.7 NC_005178.1 + 6827 0.7 0.128107
Target:  5'- cCGCCucauuGCCUGG-CAGUgGGGGUGCUAa -3'
miRNA:   3'- aGUGGu----CGGACCgGUCG-CCCUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 15773 0.7 0.131727
Target:  5'- uUCGCCGccGCCUGGCUggcguuggaaAGCGGagcGGUGCCc -3'
miRNA:   3'- -AGUGGU--CGGACCGG----------UCGCC---CUACGGu -5'
23148 3' -61.7 NC_005178.1 + 25356 0.7 0.139253
Target:  5'- -uGCCAGCCaGGCUGGCcGGGA-GCUg -3'
miRNA:   3'- agUGGUCGGaCCGGUCG-CCCUaCGGu -5'
23148 3' -61.7 NC_005178.1 + 21202 0.7 0.139253
Target:  5'- cUCGCUGGUCUGGCUGGUGaGcGUGCCGc -3'
miRNA:   3'- -AGUGGUCGGACCGGUCGC-CcUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 9530 0.7 0.143163
Target:  5'- gCGCC-GCCUGGC--GCGGGAacGCCAa -3'
miRNA:   3'- aGUGGuCGGACCGguCGCCCUa-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 33903 0.69 0.16425
Target:  5'- -uGCCGcGCCUGGCggcgaugcuCGGCGGccGGUGCCGg -3'
miRNA:   3'- agUGGU-CGGACCG---------GUCGCC--CUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 28359 0.69 0.16425
Target:  5'- aUCACCAGCauuuucGGCUucGCGGGuggcgGCCAg -3'
miRNA:   3'- -AGUGGUCGga----CCGGu-CGCCCua---CGGU- -5'
23148 3' -61.7 NC_005178.1 + 25912 0.68 0.183088
Target:  5'- gCAgCAGCUUuGCCagGGCGcGGAUGCCGu -3'
miRNA:   3'- aGUgGUCGGAcCGG--UCGC-CCUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 27196 0.68 0.183088
Target:  5'- cCACCAGCUcGGCCAGCGca--GCCc -3'
miRNA:   3'- aGUGGUCGGaCCGGUCGCccuaCGGu -5'
23148 3' -61.7 NC_005178.1 + 10039 0.68 0.183088
Target:  5'- aUCACCGcgcuCCUGGCCAGCGcccaucgccccuGGAgcuacGCCGa -3'
miRNA:   3'- -AGUGGUc---GGACCGGUCGC------------CCUa----CGGU- -5'
23148 3' -61.7 NC_005178.1 + 12268 0.68 0.193206
Target:  5'- gCACCcuGCUgaaGGUCAGCGcGGAUGCgCAg -3'
miRNA:   3'- aGUGGu-CGGa--CCGGUCGC-CCUACG-GU- -5'
23148 3' -61.7 NC_005178.1 + 19902 0.68 0.198447
Target:  5'- -gAUguGCCgGGCUGGCGGaucGAUGCCGc -3'
miRNA:   3'- agUGguCGGaCCGGUCGCC---CUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 28259 0.68 0.198447
Target:  5'- cUCGCUGGCCgccgccaaUGGUguCAGUGGGGUGaCCGg -3'
miRNA:   3'- -AGUGGUCGG--------ACCG--GUCGCCCUAC-GGU- -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.