miRNA: 3'- -GCC------------UGAGCUUCG--AGUGGCaaCUGGUG- -5'
miRNA: 3'- gCCUG-AGCUu--CGAGUGGCaaCUGGUG- -5'
miRNA: 3'- -GCCUGAGCU-------------UC-GAGUGGCAACUGGUg -5'
miRNA: 3'- -GCCUGAGCUUCGAGUGGCAACUGGUG- -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 | |||||||
| 1516 | 5' | -53.8 | NC_001335.1 | + | 22694 | 0.74 | 0.329542 |
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Target: 5'- cCGGauauguucagucGCUCGAAGUcgUCACCGccGGCCACg -3' miRNA: 3'- -GCC------------UGAGCUUCG--AGUGGCaaCUGGUG- -5' |
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| 1516 | 5' | -53.8 | NC_001335.1 | + | 20275 | 0.78 | 0.201492 |
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Target: 5'- aGGGCgUCGAuguGUUCACCGggGACUACa -3' miRNA: 3'- gCCUG-AGCUu--CGAGUGGCaaCUGGUG- -5' |
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| 1516 | 5' | -53.8 | NC_001335.1 | + | 4083 | 0.81 | 0.132811 |
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Target: 5'- uCGGACUCGAccuugaugguugcGGuUUCACCGUUGACCGu -3' miRNA: 3'- -GCCUGAGCU-------------UC-GAGUGGCAACUGGUg -5' |
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| 1516 | 5' | -53.8 | NC_001335.1 | + | 43227 | 1.11 | 0.001031 |
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Target: 5'- cCGGACUCGAAGCUCACCGUUGACCACg -3' miRNA: 3'- -GCCUGAGCUUCGAGUGGCAACUGGUG- -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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