miRNA: 3'- -GCU--UCGACUGG---GCUUACCuu---CGa-CCU- -5'
miRNA: 3'- gCUu-CGAcUGGGCUUACCuuCG----ACCU- -5'
miRNA: 3'- -GCUUCGAC-UGGGCU-----UACCUu--CGaCCU- -5'
miRNA: 3'- -GCU--UCGACUgGGCUUA---CCUU-CGACCU- -5'
miRNA: 3'- -GCUUCGACUGGGCUUACCUUCGACCU- -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 | |||||||
| 22578 | 3' | -53.1 | NC_005091.1 | + | 9298 | 0.66 | 0.838951 |
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Target: 5'- cCGAccGGCUGGCCgugCGAAUGGuucccGCcgGGAa -3' miRNA: 3'- -GCU--UCGACUGG---GCUUACCuu---CGa-CCU- -5' |
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| 22578 | 3' | -53.1 | NC_005091.1 | + | 51741 | 0.66 | 0.811208 |
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Target: 5'- uGAucGCUcGCCCGAAUGGccGCgaacUGGAa -3' miRNA: 3'- gCUu-CGAcUGGGCUUACCuuCG----ACCU- -5' |
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| 22578 | 3' | -53.1 | NC_005091.1 | + | 33978 | 0.67 | 0.761253 |
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Target: 5'- aCGAAGCUGaACCUGAagccgAUGGGuacGCcGGGc -3' miRNA: 3'- -GCUUCGAC-UGGGCU-----UACCUu--CGaCCU- -5' |
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| 22578 | 3' | -53.1 | NC_005091.1 | + | 1241 | 0.71 | 0.552731 |
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Target: 5'- uCGGccGGCUGGgCCGGAUgucGGAAgGCUGGGg -3' miRNA: 3'- -GCU--UCGACUgGGCUUA---CCUU-CGACCU- -5' |
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| 22578 | 3' | -53.1 | NC_005091.1 | + | 21138 | 1.09 | 0.001695 |
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Target: 5'- uCGAAGCUGACCCGAAUGGAAGCUGGAu -3' miRNA: 3'- -GCUUCGACUGGGCUUACCUUCGACCU- -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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