miRNA: 3'- -GGUCUCGAGGUACgU-GGUGAGCGgUu -5'
miRNA: 3'- ggUCUCGAGGua--------CGUGGUGAG-CGGUU- -5'
miRNA: 3'- gGUC-UCGAGGU--ACGUGGU-GAGCGGUu -5'
miRNA: 3'- -GGUCUCGAGGUACGUGGUGAGCGGUU- -5'
Results 21 - 24 of 24 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 | |||||||
| 31745 | 5' | -56.7 | NC_006938.1 | + | 17012 | 0.72 | 0.321553 |
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Target: 5'- uCCAGGGCUUCGUGgAgUCACUCGCgGu -3' miRNA: 3'- -GGUCUCGAGGUACgU-GGUGAGCGgUu -5' |
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| 31745 | 5' | -56.7 | NC_006938.1 | + | 28499 | 0.74 | 0.214037 |
|
Target: 5'- -aGGAGCUCCuccguggcaaGCGCCGCUCgGCCAAg -3' miRNA: 3'- ggUCUCGAGGua--------CGUGGUGAG-CGGUU- -5' |
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| 31745 | 5' | -56.7 | NC_006938.1 | + | 38124 | 0.75 | 0.20301 |
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Target: 5'- aCGGcAGCUCCAcgUGCACCGgCUCGUCGc -3' miRNA: 3'- gGUC-UCGAGGU--ACGUGGU-GAGCGGUu -5' |
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| 31745 | 5' | -56.7 | NC_006938.1 | + | 35539 | 1.08 | 0.000789 |
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Target: 5'- aCCAGAGCUCCAUGCACCACUCGCCAAa -3' miRNA: 3'- -GGUCUCGAGGUACGUGGUGAGCGGUU- -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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