miRNA: 3'- -GCUAGUUCUAACGGUCGCCCAGGCGG- -5'
miRNA: 3'- gCUAG-UUC-UaaCGgUCGCCCa----GGCGG- -5'
miRNA: 3'- -GCUAGUUCUAaCGgUC-GCCCAGg----CGG- -5'
miRNA: 3'- gCUAGUUCuaaCGG-UCGcCCa-GGCGG- -5'
miRNA: 3'- gCUAGU-------------UCuaa--CGGUCGCC-CA----GGCGG- -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 |
| Predicted miRNA align pattern | |||||||
| 23330 | 5' | -54.8 | NC_005259.1 | + | 6619 | 1.11 | 0.001144 |
|
Target: 5'- uCGAUCAAGAUUGCCAGCGGGUCCGCCc -3' miRNA: 3'- -GCUAGUUCUAACGGUCGCCCAGGCGG- -5' |
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| 23330 | 5' | -54.8 | NC_005259.1 | + | 6194 | 0.67 | 0.73823 |
|
Target: 5'- uGAUCuGAGcAgcGUgAGCGGGgugagCCGCCg -3' miRNA: 3'- gCUAG-UUC-UaaCGgUCGCCCa----GGCGG- -5' |
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| 23330 | 5' | -54.8 | NC_005259.1 | + | 5059 | 0.7 | 0.556279 |
|
Target: 5'- aCGGUCGAGAUcGUgGGcCGGGUCgacggGCCg -3' miRNA: 3'- -GCUAGUUCUAaCGgUC-GCCCAGg----CGG- -5' |
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| 23330 | 5' | -54.8 | NC_005259.1 | + | 4222 | 0.68 | 0.706828 |
|
Target: 5'- aGAUCGAGcagGCCaAGCaGGccCCGCCc -3' miRNA: 3'- gCUAGUUCuaaCGG-UCGcCCa-GGCGG- -5' |
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| 23330 | 5' | -54.8 | NC_005259.1 | + | 2133 | 0.68 | 0.716329 |
|
Target: 5'- aGGUCAcgcagacccgcacGGugcugGCCAGCGGcGUcgagCCGCCg -3' miRNA: 3'- gCUAGU-------------UCuaa--CGGUCGCC-CA----GGCGG- -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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