miRNA: 3'- -CCGCACUGGACUUGGACUGGCAGGGU- -5'
miRNA: 3'- -CCGCACUGGACUUGgACUGGCA-------------GGGU- -5'
miRNA: 3'- -CCG---------CACUGG--ACUUGGACUGGc-AGGGU- -5'
miRNA: 3'- ccGCACUGG-ACUUGGA----CUggCAGGGU- -5'
miRNA: 3'- -CCGCACUGGACUUGGACUGGCAGGGU- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 752 | 3' | -56.7 | AC_000020.1 | + | 31200 | 1.1 | 0.000312 |
|
Target: 5'- gGGCGUGACCUGAACCUGACCGUCCCAu -3' miRNA: 3'- -CCGCACUGGACUUGGACUGGCAGGGU- -5' |
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| 752 | 3' | -56.7 | AC_000020.1 | + | 27972 | 0.74 | 0.158282 |
|
Target: 5'- aGGUGUGGCUUGGGCgUGGCUGUacaguguuauugcCCCAg -3' miRNA: 3'- -CCGCACUGGACUUGgACUGGCA-------------GGGU- -5' |
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| 752 | 3' | -56.7 | AC_000020.1 | + | 27479 | 0.73 | 0.187595 |
|
Target: 5'- aGGCagccucacgGUGGCCacUGGACCUGGCCuuUCCCAu -3' miRNA: 3'- -CCG---------CACUGG--ACUUGGACUGGc-AGGGU- -5' |
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| 752 | 3' | -56.7 | AC_000020.1 | + | 8064 | 0.66 | 0.507577 |
|
Target: 5'- -cCGUGACCuUGAACCUaaaaGAaaGUUCCAu -3' miRNA: 3'- ccGCACUGG-ACUUGGA----CUggCAGGGU- -5' |
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| 752 | 3' | -56.7 | AC_000020.1 | + | 124 | 1.1 | 0.000312 |
|
Target: 5'- gGGCGUGACCUGAACCUGACCGUCCCAu -3' miRNA: 3'- -CCGCACUGGACUUGGACUGGCAGGGU- -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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