miRNA: 3'- -UGGU--CaGCGGCGGGuACgCCGGUGGA- -5'
miRNA: 3'- -UGG------------UCAGCGGCGGG------------UAC-GCCGGUGGa -5'
miRNA: 3'- -UGGUCaGCGG--CGGGUa-CGCCGGUGGa -5'
miRNA: 3'- -UGGUCAGCGGCGGGUACGCCGGUGGA- -5'
Results 41 - 44 of 44 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 | |||||||
| 23035 | 5' | -63 | NC_005178.1 | + | 32219 | 0.73 | 0.068286 |
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Target: 5'- gGCCAucGaCGCCGCCC-UG-GGCCGCCUg -3' miRNA: 3'- -UGGU--CaGCGGCGGGuACgCCGGUGGA- -5' |
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| 23035 | 5' | -63 | NC_005178.1 | + | 28798 | 0.76 | 0.039594 |
|
Target: 5'- aGCCagacgauguaauGGUCGCCGCCCuugccggcccacAUGuCGGCCGCCa -3' miRNA: 3'- -UGG------------UCAGCGGCGGG------------UAC-GCCGGUGGa -5' |
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| 23035 | 5' | -63 | NC_005178.1 | + | 26253 | 0.79 | 0.025629 |
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Target: 5'- aGCCAG-CGCCacGCCCGcaGCGGCCACCg -3' miRNA: 3'- -UGGUCaGCGG--CGGGUa-CGCCGGUGGa -5' |
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| 23035 | 5' | -63 | NC_005178.1 | + | 15466 | 1.07 | 0.000145 |
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Target: 5'- uACCAGUCGCCGCCCAUGCGGCCACCUa -3' miRNA: 3'- -UGGUCAGCGGCGGGUACGCCGGUGGA- -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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