miRNA: 3'- -UUGGucCACCGCUGCUGcUGGUaACC- -5'
miRNA: 3'- uuggUCCACCGCUGCUGC--UGGUaaCC- -5'
miRNA: 3'- -UUgGUCCACCGcuGCUGCUGGUaaCC- -5'
miRNA: 3'- uUGgUCCAC-CGCU-----GCU-GCUGGUAACC- -5'
miRNA: 3'- -UUGGUCCACCGCUGCUGCUGGUAACC- -5'
Results 1 - 5 of 5 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 | |||||||
| 3524 | 3' | -55.1 | NC_001623.1 | + | 131898 | 0.67 | 0.89241 |
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Target: 5'- cAGCCu-GUGGCGGCGGCuGCUGcUGGg -3' miRNA: 3'- -UUGGucCACCGCUGCUGcUGGUaACC- -5' |
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| 3524 | 3' | -55.1 | NC_001623.1 | + | 6348 | 0.67 | 0.863588 |
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Target: 5'- ---aAGGUGGUGGCGGCGguGCCGccGGu -3' miRNA: 3'- uuggUCCACCGCUGCUGC--UGGUaaCC- -5' |
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| 3524 | 3' | -55.1 | NC_001623.1 | + | 2370 | 0.67 | 0.863588 |
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Target: 5'- cGAgCGGGUGGU--CGAUGACCAgcGGc -3' miRNA: 3'- -UUgGUCCACCGcuGCUGCUGGUaaCC- -5' |
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| 3524 | 3' | -55.1 | NC_001623.1 | + | 109411 | 0.72 | 0.606143 |
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Target: 5'- uGCgAGGUGgGCGAagagcUGAuCGACCGUUGGg -3' miRNA: 3'- uUGgUCCAC-CGCU-----GCU-GCUGGUAACC- -5' |
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| 3524 | 3' | -55.1 | NC_001623.1 | + | 69789 | 1.09 | 0.003073 |
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Target: 5'- gAACCAGGUGGCGACGACGACCAUUGGg -3' miRNA: 3'- -UUGGUCCACCGCUGCUGCUGGUAACC- -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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