miRNA display CGI


Results 1 - 19 of 19 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
16468 3' -50.4 NC_004084.1 + 7278 0.66 0.958347
Target:  5'- gCCUCCUCGUUCGG-GAUCGc------ -3'
miRNA:   3'- -GGAGGGGCAGGUCuCUAGUuuaagcu -5'
16468 3' -50.4 NC_004084.1 + 51075 0.66 0.954178
Target:  5'- gCCUCCUgGgacgaCCGGGcGAUCGAAguccUCGAg -3'
miRNA:   3'- -GGAGGGgCa----GGUCU-CUAGUUUa---AGCU- -5'
16468 3' -50.4 NC_004084.1 + 9389 0.66 0.954178
Target:  5'- cCCgUCCCGUCCAGGacgucgugucGGUCAcgaUCGAc -3'
miRNA:   3'- -GGaGGGGCAGGUCU----------CUAGUuuaAGCU- -5'
16468 3' -50.4 NC_004084.1 + 10370 0.66 0.949735
Target:  5'- --gCgCCGUCCGGAuGAguUCGAcgUCGAg -3'
miRNA:   3'- ggaGgGGCAGGUCU-CU--AGUUuaAGCU- -5'
16468 3' -50.4 NC_004084.1 + 55951 0.66 0.949735
Target:  5'- uCCUCCUCGcgaUCCAGcguggcucGGAUCucg-UCGAc -3'
miRNA:   3'- -GGAGGGGC---AGGUC--------UCUAGuuuaAGCU- -5'
16468 3' -50.4 NC_004084.1 + 18210 0.66 0.945015
Target:  5'- gUCUCCUCGUCCAgcucGAGGUgaaCGAggUCGc -3'
miRNA:   3'- -GGAGGGGCAGGU----CUCUA---GUUuaAGCu -5'
16468 3' -50.4 NC_004084.1 + 12428 0.67 0.934728
Target:  5'- uUCUCgCCGUCCAu-GAUCGcg-UCGAc -3'
miRNA:   3'- -GGAGgGGCAGGUcuCUAGUuuaAGCU- -5'
16468 3' -50.4 NC_004084.1 + 57980 0.67 0.923298
Target:  5'- uCCUCCgCCGUCUcGAGGUCGccguaGAc -3'
miRNA:   3'- -GGAGG-GGCAGGuCUCUAGUuuaagCU- -5'
16468 3' -50.4 NC_004084.1 + 39865 0.67 0.923298
Target:  5'- aUCUCCCCGUCgGcccaccCGAGUUCGAu -3'
miRNA:   3'- -GGAGGGGCAGgUcucua-GUUUAAGCU- -5'
16468 3' -50.4 NC_004084.1 + 52213 0.67 0.910722
Target:  5'- --aCCUCGUCgGGcAGAUCAucgauuGAUUCGAa -3'
miRNA:   3'- ggaGGGGCAGgUC-UCUAGU------UUAAGCU- -5'
16468 3' -50.4 NC_004084.1 + 30907 0.68 0.889741
Target:  5'- aUCUCCCCGga-GGAGGUCc---UCGAg -3'
miRNA:   3'- -GGAGGGGCaggUCUCUAGuuuaAGCU- -5'
16468 3' -50.4 NC_004084.1 + 47442 0.71 0.762875
Target:  5'- aUCUCCuCCaGUCCAGAaggGAUCGAggUCGu -3'
miRNA:   3'- -GGAGG-GG-CAGGUCU---CUAGUUuaAGCu -5'
16468 3' -50.4 NC_004084.1 + 7469 0.71 0.741814
Target:  5'- uCgUCCUCGUCgaggaGGAGAUCAGGgucgUCGAc -3'
miRNA:   3'- -GgAGGGGCAGg----UCUCUAGUUUa---AGCU- -5'
16468 3' -50.4 NC_004084.1 + 4448 0.72 0.720293
Target:  5'- gCCUCgacgcgCCCGaCUGGAcGAUCGAGUUCGAg -3'
miRNA:   3'- -GGAG------GGGCaGGUCU-CUAGUUUAAGCU- -5'
16468 3' -50.4 NC_004084.1 + 17511 0.72 0.676259
Target:  5'- gCUCCUCGUCCAGGGccucCAGcgUCGc -3'
miRNA:   3'- gGAGGGGCAGGUCUCua--GUUuaAGCu -5'
16468 3' -50.4 NC_004084.1 + 18520 0.73 0.631527
Target:  5'- gCUCUCCGUCguGGGGUCcuggUCGAu -3'
miRNA:   3'- gGAGGGGCAGguCUCUAGuuuaAGCU- -5'
16468 3' -50.4 NC_004084.1 + 56877 0.75 0.531823
Target:  5'- gUCUCCCCcgguUCCAGGGAUCG---UCGAc -3'
miRNA:   3'- -GGAGGGGc---AGGUCUCUAGUuuaAGCU- -5'
16468 3' -50.4 NC_004084.1 + 21248 0.76 0.458344
Target:  5'- -aUCCCgGUCUGGAGAUCGGAgaCGAa -3'
miRNA:   3'- ggAGGGgCAGGUCUCUAGUUUaaGCU- -5'
16468 3' -50.4 NC_004084.1 + 45951 1.12 0.00254
Target:  5'- aCCUCCCCGUCCAGAGAUCAAAUUCGAc -3'
miRNA:   3'- -GGAGGGGCAGGUCUCUAGUUUAAGCU- -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.