miRNA: 3'- aGCCuCAGUguaaGCCCaUACGUUGG- -5'
miRNA: 3'- aGCCUCAGU--GUA--AGCCCAu---ACGuUGG- -5'
miRNA: 3'- aGC-CUCAG---------------UGUAAGCCCAUacgUUGG- -5'
miRNA: 3'- -AGCCUCAGUGUAAgCCCAUACGUUGG- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 9567 | 5' | -50 | NC_002554.1 | + | 429 | 0.66 | 0.440951 |
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Target: 5'- cCGGcGUUAa---CGGG-AUGCAACCg -3' miRNA: 3'- aGCCuCAGUguaaGCCCaUACGUUGG- -5' |
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| 9567 | 5' | -50 | NC_002554.1 | + | 2629 | 0.7 | 0.263616 |
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Target: 5'- aCGGGGUCAgcCGUuuUCGGGUcaguUGUcACCa -3' miRNA: 3'- aGCCUCAGU--GUA--AGCCCAu---ACGuUGG- -5' |
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| 9567 | 5' | -50 | NC_002554.1 | + | 7445 | 0.7 | 0.251009 |
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Target: 5'- aCGaGAGUCuucaggauccacucaGCAUUCGGGUGga-AGCCg -3' miRNA: 3'- aGC-CUCAG---------------UGUAAGCCCAUacgUUGG- -5' |
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| 9567 | 5' | -50 | NC_002554.1 | + | 1983 | 1.02 | 0.001053 |
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Target: 5'- gUCGGAGUCACAUU-GGGUAUGCAACCg -3' miRNA: 3'- -AGCCUCAGUGUAAgCCCAUACGUUGG- -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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