miRNA: 3'- -UGGCC-CGCAa-----------CUUGGAUAGcGCGGUU- -5'
miRNA: 3'- -UGGC-CCGCAACU---UGGaua-GCGCGGUu -5'
miRNA: 3'- -UGGCCCGCAACUUGGAUAGCGCGGUU- -5'
Results 21 - 23 of 23 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 | |||||||
| 19290 | 5' | -56.7 | NC_004685.1 | + | 46073 | 0.72 | 0.323346 |
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Target: 5'- uGCCGGaGCGUccagcaaacccgGGACCUGUCcCGCCGAa -3' miRNA: 3'- -UGGCC-CGCAa-----------CUUGGAUAGcGCGGUU- -5' |
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| 19290 | 5' | -56.7 | NC_004685.1 | + | 14505 | 0.73 | 0.273529 |
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Target: 5'- gACCGuGGUGUUGAcgcGCCgacgCGCGCCGc -3' miRNA: 3'- -UGGC-CCGCAACU---UGGaua-GCGCGGUu -5' |
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| 19290 | 5' | -56.7 | NC_004685.1 | + | 58564 | 1.06 | 0.001439 |
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Target: 5'- cACCGGGCGUUGAACCUAUCGCGCCAAg -3' miRNA: 3'- -UGGCCCGCAACUUGGAUAGCGCGGUU- -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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