miRNA: 3'- auaGGcCAACGUCCGGUCG-----------UGGUGGU- -5'
miRNA: 3'- -AUAG-GCCaa-CGu-CCGGUCGUGGUGGU- -5'
miRNA: 3'- -AuaGGCCaaCGU-------CCGGUCGUGGUGGU- -5'
miRNA: 3'- -AUAGGCCAACGUCCGGUCGUGGUGGU- -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 | |||||||
| 26983 | 5' | -58.3 | NC_005809.1 | + | 16043 | 0.72 | 0.166137 |
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Target: 5'- --gCCaGUUGUAGGCCAGUucgcgcacgugGCCGCCGc -3' miRNA: 3'- auaGGcCAACGUCCGGUCG-----------UGGUGGU- -5' |
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| 26983 | 5' | -58.3 | NC_005809.1 | + | 41881 | 0.73 | 0.157129 |
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Target: 5'- gUAUCuUGGgcgGCccGGCCGGCGCCGCCGu -3' miRNA: 3'- -AUAG-GCCaa-CGu-CCGGUCGUGGUGGU- -5' |
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| 26983 | 5' | -58.3 | NC_005809.1 | + | 10031 | 0.75 | 0.111498 |
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Target: 5'- aUcgCCGGcgGCAgcauccuGGCCGGCAUCACCAg -3' miRNA: 3'- -AuaGGCCaaCGU-------CCGGUCGUGGUGGU- -5' |
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| 26983 | 5' | -58.3 | NC_005809.1 | + | 37365 | 1.07 | 0.000397 |
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Target: 5'- gUAUCCGGUUGCAGGCCAGCACCACCAg -3' miRNA: 3'- -AUAGGCCAACGUCCGGUCGUGGUGGU- -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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