miRNA: 3'- gaauACCUGGAGugGUCGGUG--GUGGA- -5'
miRNA: 3'- gaauaCC----UGGAGU---------GGUCGGUGGUGGA- -5'
miRNA: 3'- gaaUACCUGGAgUGGU--CGGUGG-UGGa -5'
miRNA: 3'- -GAAUACCUGGAGUGGUCGGUGGUGGA- -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 | |||||||
| 27491 | 5' | -55.1 | NC_005872.1 | + | 18997 | 0.68 | 0.372248 |
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Target: 5'- ---uUGGACCUUuuUAGCCACgaCGCCUg -3' miRNA: 3'- gaauACCUGGAGugGUCGGUG--GUGGA- -5' |
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| 27491 | 5' | -55.1 | NC_005872.1 | + | 8131 | 0.69 | 0.319499 |
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Target: 5'- ----aGGcacaGCCUCAgcaaucuccCUAGCCACCACCUc -3' miRNA: 3'- gaauaCC----UGGAGU---------GGUCGGUGGUGGA- -5' |
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| 27491 | 5' | -55.1 | NC_005872.1 | + | 24853 | 0.7 | 0.272561 |
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Target: 5'- --aAUGGGCCUaACCAauGCCACCcACCc -3' miRNA: 3'- gaaUACCUGGAgUGGU--CGGUGG-UGGa -5' |
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| 27491 | 5' | -55.1 | NC_005872.1 | + | 15193 | 1.07 | 0.000542 |
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Target: 5'- uCUUAUGGACCUCACCAGCCACCACCUc -3' miRNA: 3'- -GAAUACCUGGAGUGGUCGGUGGUGGA- -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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