miRNA display CGI


Results 1 - 20 of 24 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
31777 3' -56.1 NC_006938.1 + 25542 0.66 0.749968
Target:  5'- gCGUgcucGCGUCCcuugagGCGcAGGAuguugccCUGCUCCg -3'
miRNA:   3'- -GCAac--CGCAGG------CGC-UCCUu------GACGAGG- -5'
31777 3' -56.1 NC_006938.1 + 14242 0.66 0.729507
Target:  5'- ---aGGCGgCCG-GAGGG--UGCUCCg -3'
miRNA:   3'- gcaaCCGCaGGCgCUCCUugACGAGG- -5'
31777 3' -56.1 NC_006938.1 + 43943 0.66 0.729507
Target:  5'- gGUUGGCaca-GCGGGuGGugUGCUCUu -3'
miRNA:   3'- gCAACCGcaggCGCUC-CUugACGAGG- -5'
31777 3' -56.1 NC_006938.1 + 36952 0.66 0.729507
Target:  5'- --aUGGCGagaGCGAGGAucaggGCUGUUCg -3'
miRNA:   3'- gcaACCGCaggCGCUCCU-----UGACGAGg -5'
31777 3' -56.1 NC_006938.1 + 28971 0.66 0.708674
Target:  5'- gCGUcGGCGUCCGuCGgcaggucgagccGGGcAUUcGCUCCg -3'
miRNA:   3'- -GCAaCCGCAGGC-GC------------UCCuUGA-CGAGG- -5'
31777 3' -56.1 NC_006938.1 + 9588 0.66 0.708674
Target:  5'- aCGggccgGGUGUUCGuCGucGGGGCUGaCUCCc -3'
miRNA:   3'- -GCaa---CCGCAGGC-GCu-CCUUGAC-GAGG- -5'
31777 3' -56.1 NC_006938.1 + 22837 0.67 0.698145
Target:  5'- ---cGGCGg--GCGGGaGAAcCUGCUCCg -3'
miRNA:   3'- gcaaCCGCaggCGCUC-CUU-GACGAGG- -5'
31777 3' -56.1 NC_006938.1 + 7355 0.67 0.687555
Target:  5'- cCGUccUGGCucaGUUCGaCGAaagGGAGCUGgUCCa -3'
miRNA:   3'- -GCA--ACCG---CAGGC-GCU---CCUUGACgAGG- -5'
31777 3' -56.1 NC_006938.1 + 4537 0.67 0.684368
Target:  5'- ---aGGCGaUgGCGAGGGgacacacucucaacAUUGCUCCa -3'
miRNA:   3'- gcaaCCGCaGgCGCUCCU--------------UGACGAGG- -5'
31777 3' -56.1 NC_006938.1 + 35188 0.67 0.655523
Target:  5'- cCGUguagGGCGgCCG-GAGGGACaGCugUCCa -3'
miRNA:   3'- -GCAa---CCGCaGGCgCUCCUUGaCG--AGG- -5'
31777 3' -56.1 NC_006938.1 + 23459 0.67 0.655523
Target:  5'- ---cGGCGcugUCCGCgucGAGGAAgaGCUCg -3'
miRNA:   3'- gcaaCCGC---AGGCG---CUCCUUgaCGAGg -5'
31777 3' -56.1 NC_006938.1 + 16543 0.68 0.630824
Target:  5'- --gUGGCcggagauauccgauGUCauCGAGGAGCUGCUCa -3'
miRNA:   3'- gcaACCG--------------CAGgcGCUCCUUGACGAGg -5'
31777 3' -56.1 NC_006938.1 + 17374 0.68 0.580485
Target:  5'- gGUUGGUcagGcCCGCGcgcggaaacuccAGGGGCUGCgagCCg -3'
miRNA:   3'- gCAACCG---CaGGCGC------------UCCUUGACGa--GG- -5'
31777 3' -56.1 NC_006938.1 + 51446 0.69 0.548769
Target:  5'- aGUUGGCGUgggcCUGCGAGccaGGAC-GCUUCg -3'
miRNA:   3'- gCAACCGCA----GGCGCUC---CUUGaCGAGG- -5'
31777 3' -56.1 NC_006938.1 + 48352 0.69 0.527926
Target:  5'- -aUUGGCGUCgCGCagcuuggagaaGAGGAcccucucccgugGCUGCUCg -3'
miRNA:   3'- gcAACCGCAG-GCG-----------CUCCU------------UGACGAGg -5'
31777 3' -56.1 NC_006938.1 + 50754 0.7 0.486189
Target:  5'- --cUGGCGUCCggggcacugcgcgGCGAcGAGCUccGCUCCg -3'
miRNA:   3'- gcaACCGCAGG-------------CGCUcCUUGA--CGAGG- -5'
31777 3' -56.1 NC_006938.1 + 8114 0.72 0.375237
Target:  5'- ----cGCGUCCGCGAGGAcagagguCUGCcCCu -3'
miRNA:   3'- gcaacCGCAGGCGCUCCUu------GACGaGG- -5'
31777 3' -56.1 NC_006938.1 + 3647 0.74 0.310896
Target:  5'- ---aGGCGUCCGgGuGGAucgguggcaaGCUGUUCCu -3'
miRNA:   3'- gcaaCCGCAGGCgCuCCU----------UGACGAGG- -5'
31777 3' -56.1 NC_006938.1 + 17898 0.75 0.275132
Target:  5'- uGUgGGCGUCUacgGCGAGGAcgACUGCgCCc -3'
miRNA:   3'- gCAaCCGCAGG---CGCUCCU--UGACGaGG- -5'
31777 3' -56.1 NC_006938.1 + 32399 0.78 0.168215
Target:  5'- aGUgGGUGUUCccggacgGCGAGGAGCUGCUCUu -3'
miRNA:   3'- gCAaCCGCAGG-------CGCUCCUUGACGAGG- -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.