miRNA: 3'- -UCG-CGCCaGCUA-CGCGUAGG-GUaCGU- -5'
miRNA: 3'- -UCgCGCCAGCUACGCgUAGG-GUaCGU- -5'
miRNA: 3'- -UCGCG---CCaGCUACGCGuAG-GGUACGU- -5'
miRNA: 3'- ucGCGCCAGCUaCGCGUA-GGGUaCGU- -5'
miRNA: 3'- -UCGCGcCAGCuaCGCG----UAG-----------GGUACGU- -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 | |||||||
| 24244 | 5' | -57.8 | NC_005263.2 | + | 45168 | 0.66 | 0.514724 |
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Target: 5'- cGGCgGCGG-CGAUgGCGCAUUCgCGaGCAu -3' miRNA: 3'- -UCG-CGCCaGCUA-CGCGUAGG-GUaCGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 26432 | 0.66 | 0.525286 |
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Target: 5'- cAG-GCGGUCGAUGCGaAUCUgCA-GCAg -3' miRNA: 3'- -UCgCGCCAGCUACGCgUAGG-GUaCGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 18272 | 0.66 | 0.525286 |
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Target: 5'- aGGCGUuccGGgCGAUGCGC-UCgUCGUGCGc -3' miRNA: 3'- -UCGCG---CCaGCUACGCGuAG-GGUACGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 6708 | 0.66 | 0.535928 |
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Target: 5'- -uUGCGGUCGG-GCGCAUgCUCGaGCGc -3' miRNA: 3'- ucGCGCCAGCUaCGCGUA-GGGUaCGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 12591 | 0.66 | 0.535928 |
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Target: 5'- gGGCGCaGUCGgcGCGCcaguGUCaccgccuucggCCAUGCGc -3' miRNA: 3'- -UCGCGcCAGCuaCGCG----UAG-----------GGUACGU- -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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