miRNA: 3'- cCG-CCGCUaaUGCUGA-------CGCUGAGa--GC- -5'
miRNA: 3'- -CCGCCGCUaaugCUGa--CGCUGAGagc -5'
miRNA: 3'- -CCGC-------------CGCUAau----GCUGa--CGCUGAGAGc -5'
Results 21 - 23 of 23 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 | |||||||
| 12577 | 5' | -53.7 | NC_003345.1 | + | 65120 | 0.66 | 0.882974 |
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Target: 5'- cGCuGGCGAggGCGACUguuuccaGCGACUUcaaCGg -3' miRNA: 3'- cCG-CCGCUaaUGCUGA-------CGCUGAGa--GC- -5' |
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| 12577 | 5' | -53.7 | NC_003345.1 | + | 25429 | 0.66 | 0.883705 |
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Target: 5'- gGGCGGCGAagaaGACgugGUGAUUCa-- -3' miRNA: 3'- -CCGCCGCUaaugCUGa--CGCUGAGagc -5' |
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| 12577 | 5' | -53.7 | NC_003345.1 | + | 10883 | 0.66 | 0.897129 |
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Target: 5'- uGGCGuucaaagacccgaGCGAUgaacgcCGACauaGCGGCUCUCa -3' miRNA: 3'- -CCGC-------------CGCUAau----GCUGa--CGCUGAGAGc -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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