Results 1 - 20 of 41 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 | |||||||
12335 | 5' | -54.5 | NC_003324.1 | + | 16980 | 1.07 | 0.001539 |
Target: 5'- gCCGCCACCUUGCAAAUCGGCGCACAUc -3' miRNA: 3'- -GGCGGUGGAACGUUUAGCCGCGUGUA- -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 41785 | 0.73 | 0.325368 |
Target: 5'- aCC-CCucuuACCUUGCGGAUUGGCGCAUc- -3' miRNA: 3'- -GGcGG----UGGAACGUUUAGCCGCGUGua -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 55111 | 0.73 | 0.341751 |
Target: 5'- gCCGuCCGCCUUGCcugccCGGCGCgACAc -3' miRNA: 3'- -GGC-GGUGGAACGuuua-GCCGCG-UGUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 55492 | 0.72 | 0.403662 |
Target: 5'- aCGCCACUguucaagGCGGGcuUCGGCGCugAa -3' miRNA: 3'- gGCGGUGGaa-----CGUUU--AGCCGCGugUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 35603 | 0.71 | 0.452004 |
Target: 5'- -aGCCACCaacgucggUGCGcagaAGUCGGCGCugGa -3' miRNA: 3'- ggCGGUGGa-------ACGU----UUAGCCGCGugUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 7266 | 0.71 | 0.472209 |
Target: 5'- aCGCCAUCgaGC---UCGGCGCGCu- -3' miRNA: 3'- gGCGGUGGaaCGuuuAGCCGCGUGua -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 29471 | 0.7 | 0.503341 |
Target: 5'- aCgGCCGCCUggcUGCGGgcgcGUCGG-GCGCAUc -3' miRNA: 3'- -GgCGGUGGA---ACGUU----UAGCCgCGUGUA- -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 13084 | 0.69 | 0.534254 |
Target: 5'- aUGCCGCCcUGCAGAUCGccagccgcgaacaGCGCAgCGUu -3' miRNA: 3'- gGCGGUGGaACGUUUAGC-------------CGCGU-GUA- -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 40254 | 0.69 | 0.535333 |
Target: 5'- aCUGCCGCCUUGCGugcGGUCcGGgGCuugGCGg -3' miRNA: 3'- -GGCGGUGGAACGU---UUAG-CCgCG---UGUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 5531 | 0.69 | 0.577915 |
Target: 5'- gCCGCCuGCCUacccagcgucgaUGCGGAgaagaacUCGGCGcCGCAg -3' miRNA: 3'- -GGCGG-UGGA------------ACGUUU-------AGCCGC-GUGUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 32825 | 0.69 | 0.579018 |
Target: 5'- cCCGCCACCaaaCcGGUCGGCGgGCu- -3' miRNA: 3'- -GGCGGUGGaacGuUUAGCCGCgUGua -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 42381 | 0.68 | 0.590072 |
Target: 5'- cCCGgCACgUgGCAGG-CGGCGCACu- -3' miRNA: 3'- -GGCgGUGgAaCGUUUaGCCGCGUGua -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 34411 | 0.68 | 0.590072 |
Target: 5'- gCCGCCGuCCUcgGCAucggugauGUCGGCcgacgGCACAUu -3' miRNA: 3'- -GGCGGU-GGAa-CGUu-------UAGCCG-----CGUGUA- -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 31340 | 0.68 | 0.594505 |
Target: 5'- gUCGCCGCCgcaaaaacgcgcagUGCGGccggCGGCGCugGc -3' miRNA: 3'- -GGCGGUGGa-------------ACGUUua--GCCGCGugUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 27300 | 0.68 | 0.598942 |
Target: 5'- cCCGCC-CCUUGCcuucgcgugCGGCGaCAUAa -3' miRNA: 3'- -GGCGGuGGAACGuuua-----GCCGC-GUGUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 8427 | 0.68 | 0.611168 |
Target: 5'- uCCGCCGgC-UGCAGGUgcaggcggauuugCGGCGCAUg- -3' miRNA: 3'- -GGCGGUgGaACGUUUA-------------GCCGCGUGua -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 35635 | 0.68 | 0.6457 |
Target: 5'- gCGCagGCCUUGCAGAUCcGCuCGCAg -3' miRNA: 3'- gGCGg-UGGAACGUUUAGcCGcGUGUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 24072 | 0.67 | 0.656829 |
Target: 5'- aCCGCCGCCcuaccaGCGcGUCGaGCGCGa-- -3' miRNA: 3'- -GGCGGUGGaa----CGUuUAGC-CGCGUgua -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 4536 | 0.67 | 0.672367 |
Target: 5'- aCGCCACCgacaagaugagccGCGccguGAUCGaGCGCGCGc -3' miRNA: 3'- gGCGGUGGaa-----------CGU----UUAGC-CGCGUGUa -5' |
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12335 | 5' | -54.5 | NC_003324.1 | + | 49881 | 0.67 | 0.679004 |
Target: 5'- -aGCCGgCggGCAAagaucgcugcGUCGGCGCGCu- -3' miRNA: 3'- ggCGGUgGaaCGUU----------UAGCCGCGUGua -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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