miRNA: 3'- gCUCGUa----GUGGAa--GUUGAC-GGCC-UGc -5'
miRNA: 3'- gcUCGUAGUGGAaguUGACGGCCuGC- -5'
miRNA: 3'- -GCUcGUAGugGaaGUUGACGGCCUGc -5'
miRNA: 3'- -GCUCGUAGUGGaa-GUUGACGGC-CUGc -5'
miRNA: 3'- -GCUCGUAGUGGAAGUUGACGGCCUGC- -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 | |||||||
| 27255 | 3' | -53.5 | NC_005841.1 | + | 38073 | 0.66 | 0.752826 |
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Target: 5'- uGAGCGcguccCACCUgacCGACUGaCCGGuACa -3' miRNA: 3'- gCUCGUa----GUGGAa--GUUGAC-GGCC-UGc -5' |
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| 27255 | 3' | -53.5 | NC_005841.1 | + | 37028 | 0.66 | 0.72032 |
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Target: 5'- -aGGCAUCAUCU---AUUGCCGGuCGa -3' miRNA: 3'- gcUCGUAGUGGAaguUGACGGCCuGC- -5' |
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| 27255 | 3' | -53.5 | NC_005841.1 | + | 36199 | 0.66 | 0.709283 |
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Target: 5'- gCGAaCAUCugCacCAAUUGCCGGAUu -3' miRNA: 3'- -GCUcGUAGugGaaGUUGACGGCCUGc -5' |
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| 27255 | 3' | -53.5 | NC_005841.1 | + | 19189 | 0.77 | 0.191736 |
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Target: 5'- cCGGGCAUUACCggaCAACUGCUGcGGCa -3' miRNA: 3'- -GCUCGUAGUGGaa-GUUGACGGC-CUGc -5' |
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| 27255 | 3' | -53.5 | NC_005841.1 | + | 15261 | 1.1 | 0.000905 |
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Target: 5'- gCGAGCAUCACCUUCAACUGCCGGACGg -3' miRNA: 3'- -GCUCGUAGUGGAAGUUGACGGCCUGC- -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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