miRNA: 3'- agUGCCuugaCGCa-AGGCCACUCUAc -5'
miRNA: 3'- aGUGCCUU--GACGCaaGGCCa----CUCUAC- -5'
miRNA: 3'- -AGUGCCUUGACGCaa----GG-CCA-CUCUac -5'
miRNA: 3'- -AGUGCCUUGACGCAAGGCCACUCUAC- -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 | |||||||
| 22296 | 5' | -52.7 | NC_005045.1 | + | 41607 | 0.66 | 0.760267 |
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Target: 5'- -gGCGGuga-GCGggUCCGGUGGGGUa -3' miRNA: 3'- agUGCCuugaCGCa-AGGCCACUCUAc -5' |
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| 22296 | 5' | -52.7 | NC_005045.1 | + | 5966 | 0.69 | 0.638104 |
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Target: 5'- gUACGGAAgcUUGCGgaCCGGaaaacGAGAUGg -3' miRNA: 3'- aGUGCCUU--GACGCaaGGCCa----CUCUAC- -5' |
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| 22296 | 5' | -52.7 | NC_005045.1 | + | 39166 | 0.73 | 0.411935 |
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Target: 5'- uUCGCGGGACUGCGgcguacCCaGGUaGAGAa- -3' miRNA: 3'- -AGUGCCUUGACGCaa----GG-CCA-CUCUac -5' |
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| 22296 | 5' | -52.7 | NC_005045.1 | + | 4331 | 1.09 | 0.001489 |
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Target: 5'- cUCACGGAACUGCGUUCCGGUGAGAUGu -3' miRNA: 3'- -AGUGCCUUGACGCAAGGCCACUCUAC- -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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