miRNA display CGI


Results 1 - 20 of 30 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
17185 3' -55.8 NC_004333.2 + 27058 0.66 0.70246
Target:  5'- cCUCGA-CGGGCguugccguaUGGAUUUCGCGgaUCa -3'
miRNA:   3'- cGAGCUaGCCCG---------GCCUGAAGCGU--AGg -5'
17185 3' -55.8 NC_004333.2 + 37936 0.66 0.701388
Target:  5'- cGCUcacCGGccUCGGGCucgagucCGGACgcgaUCGCGUUCu -3'
miRNA:   3'- -CGA---GCU--AGCCCG-------GCCUGa---AGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 12459 0.66 0.701388
Target:  5'- -aUCG-UCGucGGCCGGcACgcccgggucgucaUUCGCGUCCa -3'
miRNA:   3'- cgAGCuAGC--CCGGCC-UG-------------AAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 15808 0.66 0.670066
Target:  5'- cGUUCGAUCGcGCCG-ACgccugCGCAcguUCCg -3'
miRNA:   3'- -CGAGCUAGCcCGGCcUGaa---GCGU---AGG- -5'
17185 3' -55.8 NC_004333.2 + 37740 0.66 0.666804
Target:  5'- gGC-CGAcgagCGGGUCGGGCgcgCGCucgaugaaugucugAUCCg -3'
miRNA:   3'- -CGaGCUa---GCCCGGCCUGaa-GCG--------------UAGG- -5'
17185 3' -55.8 NC_004333.2 + 47121 0.66 0.659183
Target:  5'- ---gGAUCGcgcauccuGGCCGGAUgacaUCGCGUUCg -3'
miRNA:   3'- cgagCUAGC--------CCGGCCUGa---AGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 5375 0.67 0.637354
Target:  5'- gGgUCGAUCGGGuuGaagccggcguuGACcugUUCGCGUUCu -3'
miRNA:   3'- -CgAGCUAGCCCggC-----------CUG---AAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 41906 0.67 0.615506
Target:  5'- uGCcCGAccgcUCGcGGCCGGGCgccgUCGUG-CCg -3'
miRNA:   3'- -CGaGCU----AGC-CCGGCCUGa---AGCGUaGG- -5'
17185 3' -55.8 NC_004333.2 + 44035 0.67 0.615506
Target:  5'- gGCUCGAuaaacuaaUCGGGCCGcuacuCUUUGCGa-- -3'
miRNA:   3'- -CGAGCU--------AGCCCGGCcu---GAAGCGUagg -5'
17185 3' -55.8 NC_004333.2 + 41443 0.67 0.615506
Target:  5'- uGCUCGAcgCGGGCgaguCGGcCgUCGUgAUCCa -3'
miRNA:   3'- -CGAGCUa-GCCCG----GCCuGaAGCG-UAGG- -5'
17185 3' -55.8 NC_004333.2 + 30403 0.67 0.615506
Target:  5'- --gCGAcCGGcGCCGGACcgaaUUCGCGcgCCg -3'
miRNA:   3'- cgaGCUaGCC-CGGCCUG----AAGCGUa-GG- -5'
17185 3' -55.8 NC_004333.2 + 41865 0.67 0.615506
Target:  5'- aGCUUGAcCGGaaaCGGACUgCGCAcuUCCu -3'
miRNA:   3'- -CGAGCUaGCCcg-GCCUGAaGCGU--AGG- -5'
17185 3' -55.8 NC_004333.2 + 3290 0.67 0.593715
Target:  5'- gGCgUC-AUCGGGgCGGGCggCGCG-CCg -3'
miRNA:   3'- -CG-AGcUAGCCCgGCCUGaaGCGUaGG- -5'
17185 3' -55.8 NC_004333.2 + 1854 0.68 0.583946
Target:  5'- gGCUCGAacgccgugaucuaagCGGGCaGGGCUUCgGCccuguUCCa -3'
miRNA:   3'- -CGAGCUa--------------GCCCGgCCUGAAG-CGu----AGG- -5'
17185 3' -55.8 NC_004333.2 + 26955 0.68 0.582863
Target:  5'- uGCUCGAUCcGGCagaaggugacauCGGGCU-CGCAguguuugCCg -3'
miRNA:   3'- -CGAGCUAGcCCG------------GCCUGAaGCGUa------GG- -5'
17185 3' -55.8 NC_004333.2 + 30055 0.68 0.572051
Target:  5'- uGCUCGcgcUCGGcGCCGGugGCagCGCggCCg -3'
miRNA:   3'- -CGAGCu--AGCC-CGGCC--UGaaGCGuaGG- -5'
17185 3' -55.8 NC_004333.2 + 12326 0.69 0.518869
Target:  5'- cCUCGcgCGGGuuG-ACgUUCGCAUUCa -3'
miRNA:   3'- cGAGCuaGCCCggCcUG-AAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 37870 0.69 0.518869
Target:  5'- cGCuUCGcAUCGcGCC--GCUUCGCAUCCu -3'
miRNA:   3'- -CG-AGC-UAGCcCGGccUGAAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 8300 0.7 0.467752
Target:  5'- cCUCGcgCGGGCCGG----CGuCAUCCu -3'
miRNA:   3'- cGAGCuaGCCCGGCCugaaGC-GUAGG- -5'
17185 3' -55.8 NC_004333.2 + 40766 0.7 0.438352
Target:  5'- cGCggCGAUCGGGuuGGuguuCUUUGCggUCg -3'
miRNA:   3'- -CGa-GCUAGCCCggCCu---GAAGCGuaGG- -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.