miRNA: 3'- -ACCuCCACUGCaAGa------GGCGUGGCCUG- -5'
miRNA: 3'- aCCuCCACUGCaaGAGGCG-----------UGGCCUG- -5'
miRNA: 3'- aCCuCCACuGCAa---GAGGCGUGGCCUg -5'
miRNA: 3'- -ACCUCCACUGCAAGAGGCGUGGCCUG- -5'
Results 21 - 24 of 24 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 | |||||||
| 19127 | 5' | -57.4 | NC_004684.1 | + | 19615 | 0.72 | 0.336241 |
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Target: 5'- cUGGcGGUGACGcUCggcgacaCCGUGCUGGACg -3' miRNA: 3'- -ACCuCCACUGCaAGa------GGCGUGGCCUG- -5' |
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| 19127 | 5' | -57.4 | NC_004684.1 | + | 40536 | 0.72 | 0.305738 |
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Target: 5'- cGGcGGUGGCGacCUCCGCgaccuccaggaGCUGGGCg -3' miRNA: 3'- aCCuCCACUGCaaGAGGCG-----------UGGCCUG- -5' |
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| 19127 | 5' | -57.4 | NC_004684.1 | + | 34767 | 0.75 | 0.221353 |
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Target: 5'- cGGcGGUGuCGUcccaCUCCGCACCGGGu -3' miRNA: 3'- aCCuCCACuGCAa---GAGGCGUGGCCUg -5' |
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| 19127 | 5' | -57.4 | NC_004684.1 | + | 3938 | 1.1 | 0.000731 |
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Target: 5'- cUGGAGGUGACGUUCUCCGCACCGGACg -3' miRNA: 3'- -ACCUCCACUGCAAGAGGCGUGGCCUG- -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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