miRNA display CGI


Results 1 - 17 of 17 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
27239 3' -51.6 NC_005832.1 + 50244 0.66 0.977809
Target:  5'- gCACUCUGAccaagcagagucgGGcGUCgAGGGCCACcucucUGCc -3'
miRNA:   3'- gGUGAGACU-------------CC-CAG-UUCUGGUGa----ACG- -5'
27239 3' -51.6 NC_005832.1 + 20138 0.66 0.971875
Target:  5'- gCCGC-CUGGguguugucccugguGGGagcgauccUCAGGACCGCcUGCa -3'
miRNA:   3'- -GGUGaGACU--------------CCC--------AGUUCUGGUGaACG- -5'
27239 3' -51.6 NC_005832.1 + 33600 0.66 0.969768
Target:  5'- uCC-C-CUGAGGGUC---GCCGCggGCa -3'
miRNA:   3'- -GGuGaGACUCCCAGuucUGGUGaaCG- -5'
27239 3' -51.6 NC_005832.1 + 6666 0.66 0.969768
Target:  5'- gUACguggGAGGGUCGAGGCCGg--GUa -3'
miRNA:   3'- gGUGaga-CUCCCAGUUCUGGUgaaCG- -5'
27239 3' -51.6 NC_005832.1 + 52825 0.66 0.966565
Target:  5'- cUCACUCUGuGGGgguGGuCCACgccgaccUGCa -3'
miRNA:   3'- -GGUGAGACuCCCaguUCuGGUGa------ACG- -5'
27239 3' -51.6 NC_005832.1 + 22781 0.67 0.959456
Target:  5'- aCACUCUGuGGuccucUCAAGcACCACgacccUGCu -3'
miRNA:   3'- gGUGAGACuCCc----AGUUC-UGGUGa----ACG- -5'
27239 3' -51.6 NC_005832.1 + 52180 0.67 0.959456
Target:  5'- gCC-CUCUugacGuAGGGUCuggGGACCaggaGCUUGCa -3'
miRNA:   3'- -GGuGAGA----C-UCCCAGu--UCUGG----UGAACG- -5'
27239 3' -51.6 NC_005832.1 + 7129 0.67 0.959456
Target:  5'- aCCAgcacCUCUGAGGGUCcauGCCG--UGCc -3'
miRNA:   3'- -GGU----GAGACUCCCAGuucUGGUgaACG- -5'
27239 3' -51.6 NC_005832.1 + 95410 0.67 0.955537
Target:  5'- gCugUUUGGGGGUCuGGACgGCg--- -3'
miRNA:   3'- gGugAGACUCCCAGuUCUGgUGaacg -5'
27239 3' -51.6 NC_005832.1 + 67541 0.68 0.94227
Target:  5'- cCCACUCUGGGaaagaGUCAAGGuCCGCc--- -3'
miRNA:   3'- -GGUGAGACUCc----CAGUUCU-GGUGaacg -5'
27239 3' -51.6 NC_005832.1 + 55823 0.69 0.902187
Target:  5'- aCCuCUCgGAGccGGUCAGGGCCGCcgUGg -3'
miRNA:   3'- -GGuGAGaCUC--CCAGUUCUGGUGa-ACg -5'
27239 3' -51.6 NC_005832.1 + 87983 0.69 0.894728
Target:  5'- uCCACagggUCUGAGGGUaCAuGGcgucuauCCACUUGUc -3'
miRNA:   3'- -GGUG----AGACUCCCA-GUuCU-------GGUGAACG- -5'
27239 3' -51.6 NC_005832.1 + 104980 0.7 0.849668
Target:  5'- aCACUCuaccUGAacccuGGGUgGAGACCACUcuuUGUa -3'
miRNA:   3'- gGUGAG----ACU-----CCCAgUUCUGGUGA---ACG- -5'
27239 3' -51.6 NC_005832.1 + 37375 0.72 0.776897
Target:  5'- gCC-CUCggGAGuGGgaggCAGGACCAgCUUGCa -3'
miRNA:   3'- -GGuGAGa-CUC-CCa---GUUCUGGU-GAACG- -5'
27239 3' -51.6 NC_005832.1 + 91775 0.72 0.767053
Target:  5'- aCCGC-CUGAcGGGcuuagUCAAGACCACcccGCa -3'
miRNA:   3'- -GGUGaGACU-CCC-----AGUUCUGGUGaa-CG- -5'
27239 3' -51.6 NC_005832.1 + 30771 0.73 0.702431
Target:  5'- cCCGCUCUGAucgcaaagcccaaaGGG--AAGACCGCUcGCg -3'
miRNA:   3'- -GGUGAGACU--------------CCCagUUCUGGUGAaCG- -5'
27239 3' -51.6 NC_005832.1 + 102272 1.13 0.00281
Target:  5'- gCCACUCUGAGGGUCAAGACCACUUGCc -3'
miRNA:   3'- -GGUGAGACUCCCAGUUCUGGUGAACG- -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.