miRNA: 3'- cgacCAGGA---GGuaGCGUUGACgGUGU- -5'
miRNA: 3'- -CGACCAGGagguaGCGUUGACGgUGU- -5'
miRNA: 3'- cGACCaggaGGU--AGCGUUGACGGUGU- -5'
miRNA: 3'- -CGACCAGGAGGU-AGCGUu---GACGG--UGU- -5'
miRNA: 3'- -CGACCAGGAGGUAGCGUUGACGGUGU- -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 | |||||||
| 8450 | 3' | -55.2 | NC_002167.1 | + | 4848 | 0.66 | 0.624077 |
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Target: 5'- ---cGUCCUgaaCCcgCGCGACUGgCACAa -3' miRNA: 3'- cgacCAGGA---GGuaGCGUUGACgGUGU- -5' |
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| 8450 | 3' | -55.2 | NC_002167.1 | + | 37692 | 0.66 | 0.578824 |
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Target: 5'- gGCUGGUUUga---CGCGACUGCgGCAg -3' miRNA: 3'- -CGACCAGGagguaGCGUUGACGgUGU- -5' |
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| 8450 | 3' | -55.2 | NC_002167.1 | + | 33980 | 0.67 | 0.545341 |
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Target: 5'- aCUGGaaaaCCAgcUCGCAAUUGCCGCAc -3' miRNA: 3'- cGACCaggaGGU--AGCGUUGACGGUGU- -5' |
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| 8450 | 3' | -55.2 | NC_002167.1 | + | 34033 | 0.71 | 0.337774 |
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Target: 5'- aGCUGGUUUUCCAgUUGCAuuuuCUGCUcaGCAa -3' miRNA: 3'- -CGACCAGGAGGU-AGCGUu---GACGG--UGU- -5' |
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| 8450 | 3' | -55.2 | NC_002167.1 | + | 2733 | 1.1 | 0.000507 |
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Target: 5'- uGCUGGUCCUCCAUCGCAACUGCCACAc -3' miRNA: 3'- -CGACCAGGAGGUAGCGUUGACGGUGU- -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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