miRNA: 3'- ggACUUUA-CCgcCGCGUGUUCGUgAc -5'
miRNA: 3'- -GGACUU---------------UAC-CGCCGcgUGUUCGUGAc -5'
miRNA: 3'- -GGACUUUACCGCCgCGugU--UCGUGac -5'
miRNA: 3'- gGACUUUACCGcCGCGUGU------UCGUGac -5'
miRNA: 3'- -GGACUUUACCGCCGCGUGUUCGUGAC- -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
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| Predicted miRNA align pattern | |||||||
| 9391 | 3' | -53 | NC_002513.1 | + | 2873 | 0.66 | 0.679336 |
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Target: 5'- -aUGGAGUcGGaaGCGCGCGAGCAgUa -3' miRNA: 3'- ggACUUUA-CCgcCGCGUGUUCGUgAc -5' |
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| 9391 | 3' | -53 | NC_002513.1 | + | 30955 | 0.68 | 0.556189 |
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Target: 5'- gCCUGAAucucaguuaaauugcAUGaGCGGCaaAUAAGCACUa -3' miRNA: 3'- -GGACUU---------------UAC-CGCCGcgUGUUCGUGAc -5' |
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| 9391 | 3' | -53 | NC_002513.1 | + | 32342 | 0.69 | 0.495593 |
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Target: 5'- gCCUGAAGUGGUGGaGUugGacAGCAUc- -3' miRNA: 3'- -GGACUUUACCGCCgCGugU--UCGUGac -5' |
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| 9391 | 3' | -53 | NC_002513.1 | + | 15449 | 0.75 | 0.232049 |
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Target: 5'- gCUGGGAUGGUaGCGCACAgccggaAGCACa- -3' miRNA: 3'- gGACUUUACCGcCGCGUGU------UCGUGac -5' |
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| 9391 | 3' | -53 | NC_002513.1 | + | 13923 | 1.12 | 0.000524 |
|
Target: 5'- cCCUGAAAUGGCGGCGCACAAGCACUGg -3' miRNA: 3'- -GGACUUUACCGCCGCGUGUUCGUGAC- -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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