miRNA display CGI


Results 1 - 13 of 13 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
26874 5' -60.6 NC_005809.1 + 9958 0.66 0.428738
Target:  5'- aCCGcGGcGUcgCggcccuugACCGGGCCaGCUUGGu -3'
miRNA:   3'- -GGC-CCaCAa-Ga-------UGGCCCGGcCGGACC- -5'
26874 5' -60.6 NC_005809.1 + 25756 0.66 0.428738
Target:  5'- gCUGGGcGcgCUGCUGGGCggCGGCaacgaUGGc -3'
miRNA:   3'- -GGCCCaCaaGAUGGCCCG--GCCGg----ACC- -5'
26874 5' -60.6 NC_005809.1 + 1750 0.66 0.401516
Target:  5'- aCCGGGcGgUCaugGCCGGcCUGcGCCUGGc -3'
miRNA:   3'- -GGCCCaCaAGa--UGGCCcGGC-CGGACC- -5'
26874 5' -60.6 NC_005809.1 + 367 0.66 0.39269
Target:  5'- uCCGGGUGUgcuuggcCUGCCGauugaGCgCGGCCa-- -3'
miRNA:   3'- -GGCCCACAa------GAUGGCc----CG-GCCGGacc -5'
26874 5' -60.6 NC_005809.1 + 27852 0.66 0.38399
Target:  5'- cCUGGGg---CUACCGGGCgcagGGCaUGGa -3'
miRNA:   3'- -GGCCCacaaGAUGGCCCGg---CCGgACC- -5'
26874 5' -60.6 NC_005809.1 + 36171 0.67 0.334542
Target:  5'- aUGGGccgcgaCUacACCGGGCCGGCC-GGc -3'
miRNA:   3'- gGCCCacaa--GA--UGGCCCGGCCGGaCC- -5'
26874 5' -60.6 NC_005809.1 + 16943 0.68 0.326768
Target:  5'- gCCGaGGUGgacgcgCUGCUGGcGCCGcGCCgccgUGGu -3'
miRNA:   3'- -GGC-CCACaa----GAUGGCC-CGGC-CGG----ACC- -5'
26874 5' -60.6 NC_005809.1 + 14867 0.68 0.289916
Target:  5'- aCCGGcGgcgagccgCUGCCGGcGCgCGGCCUGu -3'
miRNA:   3'- -GGCC-Cacaa----GAUGGCC-CG-GCCGGACc -5'
26874 5' -60.6 NC_005809.1 + 17217 0.69 0.276115
Target:  5'- gCCcGGUGgccggCUAUgCGaacuGGCCGGCCUGGa -3'
miRNA:   3'- -GGcCCACaa---GAUG-GC----CCGGCCGGACC- -5'
26874 5' -60.6 NC_005809.1 + 6215 0.69 0.256405
Target:  5'- gCCGGGUucugcGUUUUGCCuucGGCCagGGCCUGc -3'
miRNA:   3'- -GGCCCA-----CAAGAUGGc--CCGG--CCGGACc -5'
26874 5' -60.6 NC_005809.1 + 17090 0.72 0.179289
Target:  5'- gCCGGcGcgGUUCUcgGCCGGGCCuuggGGCUUGa -3'
miRNA:   3'- -GGCC-Ca-CAAGA--UGGCCCGG----CCGGACc -5'
26874 5' -60.6 NC_005809.1 + 12453 0.73 0.133873
Target:  5'- gCGGcGUGUUCUGgCGcGGCCucaucGCCUGGg -3'
miRNA:   3'- gGCC-CACAAGAUgGC-CCGGc----CGGACC- -5'
26874 5' -60.6 NC_005809.1 + 22778 1.1 0.000227
Target:  5'- uCCGGGUGUUCUACCGGGCCGGCCUGGc -3'
miRNA:   3'- -GGCCCACAAGAUGGCCCGGCCGGACC- -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.