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
31903 5' -59.7 NC_006938.1 + 32017 0.66 0.551809
Target:  5'- aCGGAGCC-AGUGGuGGCUg-GCaGGUu -3'
miRNA:   3'- -GCCUCGGcUCACCuCUGGagCGaCCG- -5'
31903 5' -59.7 NC_006938.1 + 55019 0.66 0.551809
Target:  5'- uCGGAcCCGGaaGGGGAUCgacugCGCUGGUc -3'
miRNA:   3'- -GCCUcGGCUcaCCUCUGGa----GCGACCG- -5'
31903 5' -59.7 NC_006938.1 + 48960 0.66 0.541543
Target:  5'- cCGcGAG-CGGGUGaAGACC-CGCUGGa -3'
miRNA:   3'- -GC-CUCgGCUCACcUCUGGaGCGACCg -5'
31903 5' -59.7 NC_006938.1 + 21121 0.66 0.53134
Target:  5'- gGGuuccGGCCGAgggaGUGGcAGGCgUCGCUccGGCc -3'
miRNA:   3'- gCC----UCGGCU----CACC-UCUGgAGCGA--CCG- -5'
31903 5' -59.7 NC_006938.1 + 2460 0.66 0.521209
Target:  5'- uCGGGGaaGAgcGUGGGGacaGCCUCGUcgaucugcgUGGCg -3'
miRNA:   3'- -GCCUCggCU--CACCUC---UGGAGCG---------ACCG- -5'
31903 5' -59.7 NC_006938.1 + 60259 0.66 0.521209
Target:  5'- aCGGA--CGAGUGG-GACCUCaCaGGCg -3'
miRNA:   3'- -GCCUcgGCUCACCuCUGGAGcGaCCG- -5'
31903 5' -59.7 NC_006938.1 + 7744 0.66 0.5202
Target:  5'- cCGGAagcgaaGCCcagacaggcgagaGGGUGG-GGCCUUGgUGGCg -3'
miRNA:   3'- -GCCU------CGG-------------CUCACCuCUGGAGCgACCG- -5'
31903 5' -59.7 NC_006938.1 + 30936 0.67 0.501179
Target:  5'- uGGAGCuCGaAGUGGAacuuGACCaCGUUGuGCc -3'
miRNA:   3'- gCCUCG-GC-UCACCU----CUGGaGCGAC-CG- -5'
31903 5' -59.7 NC_006938.1 + 9140 0.67 0.480521
Target:  5'- aGG-GCCGcgaggacAGUGGuGGCCUCGaCUccGGCc -3'
miRNA:   3'- gCCuCGGC-------UCACCuCUGGAGC-GA--CCG- -5'
31903 5' -59.7 NC_006938.1 + 12710 0.67 0.462194
Target:  5'- uCGGuGCCGAGcUGGcGGAgCUCGCcccGCg -3'
miRNA:   3'- -GCCuCGGCUC-ACC-UCUgGAGCGac-CG- -5'
31903 5' -59.7 NC_006938.1 + 15336 0.68 0.434029
Target:  5'- aCGGAGagaCcauGUGGGGAgCCUacgGCUGGCg -3'
miRNA:   3'- -GCCUCg--Gcu-CACCUCU-GGAg--CGACCG- -5'
31903 5' -59.7 NC_006938.1 + 25438 0.68 0.424865
Target:  5'- -cGAGCCGGugcacGUGGAGcuGCCguucgaccaGCUGGCg -3'
miRNA:   3'- gcCUCGGCU-----CACCUC--UGGag-------CGACCG- -5'
31903 5' -59.7 NC_006938.1 + 60757 0.68 0.415816
Target:  5'- gGGAcGCCGAGUGGcugcuuGGACCguucaUGUaUGGCa -3'
miRNA:   3'- gCCU-CGGCUCACC------UCUGGa----GCG-ACCG- -5'
31903 5' -59.7 NC_006938.1 + 33076 0.68 0.406886
Target:  5'- gGGuGGCCGAGUGGua---UgGCUGGCg -3'
miRNA:   3'- gCC-UCGGCUCACCucuggAgCGACCG- -5'
31903 5' -59.7 NC_006938.1 + 23021 0.68 0.406886
Target:  5'- gGGAGCUGgaGGUGGAG-Ca-CGuCUGGCa -3'
miRNA:   3'- gCCUCGGC--UCACCUCuGgaGC-GACCG- -5'
31903 5' -59.7 NC_006938.1 + 57050 0.69 0.389393
Target:  5'- aGGAGCUGAa-GGAGAUCacagcgCGCUcGGCa -3'
miRNA:   3'- gCCUCGGCUcaCCUCUGGa-----GCGA-CCG- -5'
31903 5' -59.7 NC_006938.1 + 48606 0.69 0.364094
Target:  5'- gGGAGCCGGGaUGuuGAGcGCCUUGacaaaUGGCg -3'
miRNA:   3'- gCCUCGGCUC-AC--CUC-UGGAGCg----ACCG- -5'
31903 5' -59.7 NC_006938.1 + 40134 0.69 0.355107
Target:  5'- cCGGgugucgcGGCCGAgGUGGAcauGACagaCGCUGGCu -3'
miRNA:   3'- -GCC-------UCGGCU-CACCU---CUGga-GCGACCG- -5'
31903 5' -59.7 NC_006938.1 + 56506 0.7 0.332172
Target:  5'- uGGAGCCGGG-GcGAcGcCCagGCUGGCg -3'
miRNA:   3'- gCCUCGGCUCaC-CU-CuGGagCGACCG- -5'
31903 5' -59.7 NC_006938.1 + 37931 0.7 0.332172
Target:  5'- gCGGuGGCCagggcGGUGGAGGCgUCGgcuCUGGCg -3'
miRNA:   3'- -GCC-UCGGc----UCACCUCUGgAGC---GACCG- -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.