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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 | |||||||
| 8727 | 3' | -52.7 | NC_002331.1 | + | 167688 | 0.66 | 0.984786 |
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Target: 5'- uUACGUACaugaCACCcAUGACCACUugauGUGa -3' miRNA: 3'- cAUGUAUGg---GUGGaUGCUGGUGA----CGC- -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 106431 | 0.66 | 0.98291 |
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Target: 5'- -aACGuUGCCUACCUACGcacaauACCACuuguuuUGCGu -3' miRNA: 3'- caUGU-AUGGGUGGAUGC------UGGUG------ACGC- -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 87125 | 0.66 | 0.980865 |
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Target: 5'- cGUugAUGgCCACgUuuucaACGACCACUGg- -3' miRNA: 3'- -CAugUAUgGGUGgA-----UGCUGGUGACgc -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 5270 | 0.67 | 0.973631 |
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Target: 5'- aUGCA-ACCCACCaacacUACGACCGCg--- -3' miRNA: 3'- cAUGUaUGGGUGG-----AUGCUGGUGacgc -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 7433 | 0.67 | 0.972812 |
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Target: 5'- -gACGcGCCCACCUcauauuuuguuuugACGAaCGCUGUGa -3' miRNA: 3'- caUGUaUGGGUGGA--------------UGCUgGUGACGC- -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 87619 | 0.67 | 0.967819 |
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Target: 5'- -gACGUGguUCCugCgcUGGCCGCUGCGu -3' miRNA: 3'- caUGUAU--GGGugGauGCUGGUGACGC- -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 11380 | 0.68 | 0.949452 |
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Target: 5'- uUAUAUGCCUACUg--GACgACUGCGu -3' miRNA: 3'- cAUGUAUGGGUGGaugCUGgUGACGC- -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 121769 | 0.72 | 0.834292 |
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Target: 5'- cUGCAcuCUCACCU-CGACCAUUGCa -3' miRNA: 3'- cAUGUauGGGUGGAuGCUGGUGACGc -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 8667 | 0.72 | 0.825807 |
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Target: 5'- -aACGcACCCACCgacgAgGACCuACUGCGu -3' miRNA: 3'- caUGUaUGGGUGGa---UgCUGG-UGACGC- -5' |
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| 8727 | 3' | -52.7 | NC_002331.1 | + | 68122 | 1.09 | 0.007363 |
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Target: 5'- cGUACAUACCCACCUACGACCACUGCGc -3' miRNA: 3'- -CAUGUAUGGGUGGAUGCUGGUGACGC- -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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