Results 1 - 20 of 21 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 | |||||||
17140 | 3' | -53.1 | NC_004333.2 | + | 256 | 0.69 | 0.622419 |
Target: 5'- --cCGUUCGAUGUGgucgUCAcgccgccgAGCaCGGUCa -3' miRNA: 3'- gaaGCGAGCUACGCa---AGU--------UCG-GCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 1783 | 0.68 | 0.667588 |
Target: 5'- --cCGCUUaGAUcacgGCGUUCGAGCCGauaGUCa -3' miRNA: 3'- gaaGCGAG-CUA----CGCAAGUUCGGC---CAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 2004 | 0.71 | 0.490105 |
Target: 5'- -gUCGC-CGGUGCGggCcAGCUGGUg -3' miRNA: 3'- gaAGCGaGCUACGCaaGuUCGGCCAg -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 7018 | 0.68 | 0.690007 |
Target: 5'- --gCGCUCGAUG-GUUCAGGCU--UCg -3' miRNA: 3'- gaaGCGAGCUACgCAAGUUCGGccAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 7121 | 0.66 | 0.77635 |
Target: 5'- -aUCG-UCGugcaagGCGUUCAA-CCGGUCg -3' miRNA: 3'- gaAGCgAGCua----CGCAAGUUcGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 12787 | 1.11 | 0.001027 |
Target: 5'- cCUUCGCUCGAUGCGUUCAAGCCGGUCg -3' miRNA: 3'- -GAAGCGAGCUACGCAAGUUCGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 13533 | 0.7 | 0.577387 |
Target: 5'- --gUGCUCGcgGCGUUgccgccggcggcCAGGCCGGa- -3' miRNA: 3'- gaaGCGAGCuaCGCAA------------GUUCGGCCag -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 17058 | 0.67 | 0.734043 |
Target: 5'- --aUGCUCGcgGUGUUCcAGCCGcGcCg -3' miRNA: 3'- gaaGCGAGCuaCGCAAGuUCGGC-CaG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 20437 | 0.75 | 0.282638 |
Target: 5'- aCUUCauuUUCGAcgGCGUUCAcgaAGCCGGUCg -3' miRNA: 3'- -GAAGc--GAGCUa-CGCAAGU---UCGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 25722 | 0.7 | 0.53311 |
Target: 5'- -cUUGCUCGccgGCcagcugCAGGCCGGUCg -3' miRNA: 3'- gaAGCGAGCua-CGcaa---GUUCGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 25763 | 0.66 | 0.77635 |
Target: 5'- -cUCGCgg---GCGUUCAGGCUgaucaGGUCg -3' miRNA: 3'- gaAGCGagcuaCGCAAGUUCGG-----CCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 26297 | 0.75 | 0.282638 |
Target: 5'- --gCGCcgUCGAUGCGa--AAGCCGGUCg -3' miRNA: 3'- gaaGCG--AGCUACGCaagUUCGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 28844 | 0.67 | 0.755462 |
Target: 5'- -aUCGUgcCGGcUGCGUUCGuAGCCGG-Cg -3' miRNA: 3'- gaAGCGa-GCU-ACGCAAGU-UCGGCCaG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 30964 | 0.71 | 0.490105 |
Target: 5'- --gCGCUCGAcGCGUUCAA-CCaGUCg -3' miRNA: 3'- gaaGCGAGCUaCGCAAGUUcGGcCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 32298 | 0.66 | 0.796609 |
Target: 5'- --gCGaugUCGAcgUGCGUcagCAGGUCGGUCa -3' miRNA: 3'- gaaGCg--AGCU--ACGCAa--GUUCGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 37297 | 0.7 | 0.555119 |
Target: 5'- -gUCGaaggCGAcGCGUUCcAGUCGGUCg -3' miRNA: 3'- gaAGCga--GCUaCGCAAGuUCGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 40817 | 0.7 | 0.569568 |
Target: 5'- --gCGCUCGAUcagcaucGCGUUCAGgagcgacuugccgccGCCGGUg -3' miRNA: 3'- gaaGCGAGCUA-------CGCAAGUU---------------CGGCCAg -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 41442 | 0.71 | 0.500712 |
Target: 5'- --cUGCUCGAcGCGggCGAGUCGGcCg -3' miRNA: 3'- gaaGCGAGCUaCGCaaGUUCGGCCaG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 41637 | 0.67 | 0.701135 |
Target: 5'- --aCGaaUGgcGCGUUgAAGCCGGUCg -3' miRNA: 3'- gaaGCgaGCuaCGCAAgUUCGGCCAG- -5' |
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17140 | 3' | -53.1 | NC_004333.2 | + | 43632 | 0.66 | 0.77635 |
Target: 5'- --gCGCgCGAcacgccauuaaUGCGaUCAGGCgCGGUCa -3' miRNA: 3'- gaaGCGaGCU-----------ACGCaAGUUCG-GCCAG- -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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