miRNA display CGI


Results 1 - 20 of 23 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
31768 3' -55.2 NC_006938.1 + 59364 0.66 0.794191
Target:  5'- gUGGCUCugGCaCGacCAUCGUCGGUCcGAc -3'
miRNA:   3'- gGCCGAG--CG-GCa-GUAGCAGCUAGuCU- -5'
31768 3' -55.2 NC_006938.1 + 39563 0.66 0.794191
Target:  5'- aUGGUgauGCCGUCcUCGUCGAacCAGGc -3'
miRNA:   3'- gGCCGag-CGGCAGuAGCAGCUa-GUCU- -5'
31768 3' -55.2 NC_006938.1 + 56402 0.66 0.794191
Target:  5'- cUCGGCcauUCGCCGUCuccagCGggagCGcUCGGAc -3'
miRNA:   3'- -GGCCG---AGCGGCAGua---GCa---GCuAGUCU- -5'
31768 3' -55.2 NC_006938.1 + 17887 0.66 0.788473
Target:  5'- cCUGGCUCaguccgcuccaGCCGUUcUCGgccucccggccucgaUCGGUCAGGu -3'
miRNA:   3'- -GGCCGAG-----------CGGCAGuAGC---------------AGCUAGUCU- -5'
31768 3' -55.2 NC_006938.1 + 61839 0.67 0.744982
Target:  5'- aCCGGCcggaGCUGUCcauggCGUCGucgCAGAu -3'
miRNA:   3'- -GGCCGag--CGGCAGua---GCAGCua-GUCU- -5'
31768 3' -55.2 NC_006938.1 + 22650 0.67 0.744982
Target:  5'- -gGGCUUGCgcugauugagCG-CcgCGUCGAUCGGAg -3'
miRNA:   3'- ggCCGAGCG----------GCaGuaGCAGCUAGUCU- -5'
31768 3' -55.2 NC_006938.1 + 35097 0.67 0.738869
Target:  5'- gCCGGgucgaucucgaggauCUUGCUGUCGcCGUCGGUCGu- -3'
miRNA:   3'- -GGCC---------------GAGCGGCAGUaGCAGCUAGUcu -5'
31768 3' -55.2 NC_006938.1 + 53160 0.67 0.738869
Target:  5'- aCGcCUCGCCcucgauguucgacugGUCGUCGUC-AUCGGAg -3'
miRNA:   3'- gGCcGAGCGG---------------CAGUAGCAGcUAGUCU- -5'
31768 3' -55.2 NC_006938.1 + 21500 0.67 0.734773
Target:  5'- aUGGCagCGCCGaaggcacCGUCGUUGAUCgAGAc -3'
miRNA:   3'- gGCCGa-GCGGCa------GUAGCAGCUAG-UCU- -5'
31768 3' -55.2 NC_006938.1 + 28897 0.67 0.724465
Target:  5'- gCC-GCUCgGuuGUaGUCGUUGGUCAGAg -3'
miRNA:   3'- -GGcCGAG-CggCAgUAGCAGCUAGUCU- -5'
31768 3' -55.2 NC_006938.1 + 15656 0.67 0.714071
Target:  5'- gCGG-UCGgCGUCGagGUCGGUCGGu -3'
miRNA:   3'- gGCCgAGCgGCAGUagCAGCUAGUCu -5'
31768 3' -55.2 NC_006938.1 + 23036 0.67 0.714071
Target:  5'- cUCGauCUCGCCGacguccUCGUCGUCcgGAUCGGAg -3'
miRNA:   3'- -GGCc-GAGCGGC------AGUAGCAG--CUAGUCU- -5'
31768 3' -55.2 NC_006938.1 + 11555 0.68 0.7036
Target:  5'- -gGGCgucgCGUCGUguUCGUCGGgcggCAGGu -3'
miRNA:   3'- ggCCGa---GCGGCAguAGCAGCUa---GUCU- -5'
31768 3' -55.2 NC_006938.1 + 57211 0.68 0.697284
Target:  5'- uCCGGCUCGuggacagcgacgagaCCGccacCGUCaUCGAUCGGGa -3'
miRNA:   3'- -GGCCGAGC---------------GGCa---GUAGcAGCUAGUCU- -5'
31768 3' -55.2 NC_006938.1 + 3800 0.68 0.693062
Target:  5'- cCCGGCaCGCgGUCucgCGUCGcAUCAu- -3'
miRNA:   3'- -GGCCGaGCGgCAGua-GCAGC-UAGUcu -5'
31768 3' -55.2 NC_006938.1 + 26838 0.68 0.661156
Target:  5'- gCCGGUU-GCCGaUGUCGUCGAcgagCGGAc -3'
miRNA:   3'- -GGCCGAgCGGCaGUAGCAGCUa---GUCU- -5'
31768 3' -55.2 NC_006938.1 + 49478 0.69 0.618298
Target:  5'- gUCGGC-CGCCGUCGacgacaccgucuUCG-CGAUCAa- -3'
miRNA:   3'- -GGCCGaGCGGCAGU------------AGCaGCUAGUcu -5'
31768 3' -55.2 NC_006938.1 + 60038 0.69 0.596902
Target:  5'- cCCGGcCUUGCCGcCGUgguaccaggccgCGUCGAUCuGGu -3'
miRNA:   3'- -GGCC-GAGCGGCaGUA------------GCAGCUAGuCU- -5'
31768 3' -55.2 NC_006938.1 + 211 0.7 0.575619
Target:  5'- aCCGGCUCGCCGcCGcccuUCGgaaccuUCGG-CAGGu -3'
miRNA:   3'- -GGCCGAGCGGCaGU----AGC------AGCUaGUCU- -5'
31768 3' -55.2 NC_006938.1 + 23082 0.72 0.443887
Target:  5'- uUCGGCUgGCCcUgGUCGUCcGUCGGAg -3'
miRNA:   3'- -GGCCGAgCGGcAgUAGCAGcUAGUCU- -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.