miRNA: 3'- aaCUACC-GACCag-GGCGUa-GUAGUUG- -5'
miRNA: 3'- aaCUACCGaCCAGG-------------GCGUAGUAGUUG- -5'
miRNA: 3'- aaCUaCCG-ACCAGGG---------CGUAGUAGUUG- -5'
miRNA: 3'- -AACUACCGACCAGGGCGUAGUAGUUG- -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 | |||||||
| 1002 | 5' | -53.5 | NC_000924.1 | + | 36011 | 0.66 | 0.798399 |
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Target: 5'- -gGGUGGuCUGGguaCUGCAacCGUCAGCa -3' miRNA: 3'- aaCUACC-GACCag-GGCGUa-GUAGUUG- -5' |
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| 1002 | 5' | -53.5 | NC_000924.1 | + | 21248 | 0.66 | 0.787373 |
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Target: 5'- -cGAUGGC-GGUCCauuaucugcauuaUGCGUUGUUAGCu -3' miRNA: 3'- aaCUACCGaCCAGG-------------GCGUAGUAGUUG- -5' |
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| 1002 | 5' | -53.5 | NC_000924.1 | + | 1053 | 0.68 | 0.658322 |
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Target: 5'- -cGA-GGCuUGGUCCUggcaggcugGCGUCAUCGAUu -3' miRNA: 3'- aaCUaCCG-ACCAGGG---------CGUAGUAGUUG- -5' |
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| 1002 | 5' | -53.5 | NC_000924.1 | + | 7110 | 1.08 | 0.001491 |
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Target: 5'- gUUGAUGGCUGGUCCCGCAUCAUCAACg -3' miRNA: 3'- -AACUACCGACCAGGGCGUAGUAGUUG- -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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