miRNA: 3'- aGAGUCUaGUGUACAuuAACA------ACCGG- -5'
miRNA: 3'- aGAGUCUAGUGUACAuuAACAa------CCGG- -5'
miRNA: 3'- -AGAGUCUaGUGUACAUUAACaACCGG- -5'
miRNA: 3'- -AGAGUCUAGUGUACAUUAACAACCGG- -5'
Results 1 - 4 of 4 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 | |||||||
| 31414 | 3' | -44.7 | NC_006635.1 | + | 6127 | 0.72 | 0.847788 |
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Target: 5'- cCUCAGAcCACAUGU--UUGUcaaccuUGGCUu -3' miRNA: 3'- aGAGUCUaGUGUACAuuAACA------ACCGG- -5' |
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| 31414 | 3' | -44.7 | NC_006635.1 | + | 6676 | 0.76 | 0.603313 |
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Target: 5'- cCUCAGAUCACAUGU--UUGUcaaccucGGCUu -3' miRNA: 3'- aGAGUCUAGUGUACAuuAACAa------CCGG- -5' |
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| 31414 | 3' | -44.7 | NC_006635.1 | + | 6035 | 0.97 | 0.041567 |
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Target: 5'- gUCUCAGAcCACAUGUAAUUGcUGGCCg -3' miRNA: 3'- -AGAGUCUaGUGUACAUUAACaACCGG- -5' |
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| 31414 | 3' | -44.7 | NC_006635.1 | + | 6768 | 1.16 | 0.002156 |
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Target: 5'- gUCUCAGAUCACAUGUAAUUGUUGGCCg -3' miRNA: 3'- -AGAGUCUAGUGUACAUUAACAACCGG- -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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