miRNA: 3'- -CCCaACAGCGCCAcUGGCuuGCGCau -5'
miRNA: 3'- -CCCa-ACAGCG----CCA-----------CUGGCUUGCGcau -5'
miRNA: 3'- -CCCAACa-GCGCCacUGGCUuGCGCAU- -5'
miRNA: 3'- -CC-CaaCAGCGCCa---C---------UGGCUUGCGCau -5'
miRNA: 3'- -CCCAACAGCGCCACUGGCUUGCGCAU- -5'
Results 1 - 5 of 5 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 | |||||||
| 32080 | 5' | -55.3 | NC_007016.1 | + | 26916 | 0.66 | 0.923914 |
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Target: 5'- uGGG-UGUCGCGGUuACCGc-CGUGc- -3' miRNA: 3'- -CCCaACAGCGCCAcUGGCuuGCGCau -5' |
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| 32080 | 5' | -55.3 | NC_007016.1 | + | 123118 | 0.66 | 0.918309 |
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Target: 5'- cGGGcgUGUCGUgaggGGUuucucugaguaGACCGAGCGCc-- -3' miRNA: 3'- -CCCa-ACAGCG----CCA-----------CUGGCUUGCGcau -5' |
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| 32080 | 5' | -55.3 | NC_007016.1 | + | 46918 | 0.69 | 0.807226 |
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Target: 5'- aGGGUUGcaCGCGGacACUGGuCGCGUAg -3' miRNA: 3'- -CCCAACa-GCGCCacUGGCUuGCGCAU- -5' |
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| 32080 | 5' | -55.3 | NC_007016.1 | + | 115625 | 0.69 | 0.779903 |
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Target: 5'- cGGcGggGUCGCGGggagGucacaccgaGCCGGGCGCGg- -3' miRNA: 3'- -CC-CaaCAGCGCCa---C---------UGGCUUGCGCau -5' |
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| 32080 | 5' | -55.3 | NC_007016.1 | + | 18016 | 1.09 | 0.003205 |
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Target: 5'- gGGGUUGUCGCGGUGACCGAACGCGUAg -3' miRNA: 3'- -CCCAACAGCGCCACUGGCUUGCGCAU- -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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