miRNA: 3'- -GGA---CGG-------ACUa----CCCAGg--GUGCAGGCGC- -5'
miRNA: 3'- -GGACGGACUacccagGGUGCAGGCGC- -5'
miRNA: 3'- -GgACGGaCUACCCAGgGUGCaGGCGc -5'
miRNA: 3'- -GGACGGACUACCCAGGGUGCAGGCGC- -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 | |||||||
| 21274 | 5' | -59.5 | NC_004778.3 | + | 5466 | 0.66 | 0.764358 |
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Target: 5'- aCCUuccGCUuuaaucuUGGggucgGGGUCgaaCACGUCCGCGa -3' miRNA: 3'- -GGA---CGG-------ACUa----CCCAGg--GUGCAGGCGC- -5' |
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| 21274 | 5' | -59.5 | NC_004778.3 | + | 95537 | 0.66 | 0.746588 |
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Target: 5'- gCUUGCUUGAaaca--CCACGUCCGCGu -3' miRNA: 3'- -GGACGGACUacccagGGUGCAGGCGC- -5' |
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| 21274 | 5' | -59.5 | NC_004778.3 | + | 94840 | 0.7 | 0.510958 |
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Target: 5'- aCgUGCC-GGUGGGUUgCGCG-CCGCa -3' miRNA: 3'- -GgACGGaCUACCCAGgGUGCaGGCGc -5' |
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| 21274 | 5' | -59.5 | NC_004778.3 | + | 4071 | 1.09 | 0.001242 |
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Target: 5'- gCCUGCCUGAUGGGUCCCACGUCCGCGu -3' miRNA: 3'- -GGACGGACUACCCAGGGUGCAGGCGC- -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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