miRNA: 3'- aAGCC-------GGCGGUGUGUA---ACCGUcGGUC- -5'
miRNA: 3'- aaGCCGGCGGUG--------------UGUAAC--CGUCGGUC- -5'
miRNA: 3'- -AAGCCGGCGGUGUGUAACCGUCGGUC- -5'
Results 21 - 23 of 23 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 | |||||||
| 18053 | 3' | -58.7 | NC_004680.1 | + | 9041 | 0.72 | 0.208406 |
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Target: 5'- cUCGGuccacgcCCGCCACACAUcccUGGCA-CCAGc -3' miRNA: 3'- aAGCC-------GGCGGUGUGUA---ACCGUcGGUC- -5' |
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| 18053 | 3' | -58.7 | NC_004680.1 | + | 9886 | 0.72 | 0.201897 |
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Target: 5'- -aCGGCCGCCGCgacaggcaucaucgGCGUUGcuGCGGUCAGc -3' miRNA: 3'- aaGCCGGCGGUG--------------UGUAAC--CGUCGGUC- -5' |
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| 18053 | 3' | -58.7 | NC_004680.1 | + | 2049 | 1.05 | 0.000756 |
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Target: 5'- cUUCGGCCGCCACACAUUGGCAGCCAGc -3' miRNA: 3'- -AAGCCGGCGGUGUGUAACCGUCGGUC- -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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