miRNA: 3'- -GGACCCUUUUCUGg--GCGUUacug----GCU- -5'
miRNA: 3'- -GGaCCCUUuu----CUGGGCgUUACUGGcu -5'
miRNA: 3'- -GGACCCUu----UUCUGGg-CGUUACugGCU- -5'
miRNA: 3'- -GGaCCCUUUUCUg----GGCGUUACUGGCU- -5'
miRNA: 3'- -GGACCCUUUUCUGGGCGUUACUGGCU- -5'
Results 21 - 25 of 25 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 | |||||||
| 2647 | 3' | -51.9 | NC_001491.2 | + | 30733 | 0.7 | 0.923307 |
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Target: 5'- cCCUGGGAGGAGACauaCGCAAauuagaaaCGAc -3' miRNA: 3'- -GGACCCUUUUCUGg--GCGUUacug----GCU- -5' |
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| 2647 | 3' | -51.9 | NC_001491.2 | + | 2717 | 0.71 | 0.878164 |
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Target: 5'- cCCgGGGAGccugguGGCCCGgGGUGGCCa- -3' miRNA: 3'- -GGaCCCUUuu----CUGGGCgUUACUGGcu -5' |
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| 2647 | 3' | -51.9 | NC_001491.2 | + | 11241 | 0.75 | 0.696693 |
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Target: 5'- gCCUGGGAugaguGGGACCgaGUAGUGugUGAu -3' miRNA: 3'- -GGACCCUu----UUCUGGg-CGUUACugGCU- -5' |
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| 2647 | 3' | -51.9 | NC_001491.2 | + | 56088 | 0.83 | 0.318305 |
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Target: 5'- cCCgGGGGAAAGAgugcaCCGCGGUGGCCGGg -3' miRNA: 3'- -GGaCCCUUUUCUg----GGCGUUACUGGCU- -5' |
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| 2647 | 3' | -51.9 | NC_001491.2 | + | 111972 | 1.12 | 0.004823 |
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Target: 5'- aCCUGGGAAAAGACCCGCAAUGACCGAa -3' miRNA: 3'- -GGACCCUUUUCUGGGCGUUACUGGCU- -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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