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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 | |||||||
| 22000 | 3' | -50.6 | NC_004914.1 | + | 21137 | 0.66 | 0.955378 |
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Target: 5'- aGGCCcGCcUUGCccgUGGCaACGCGCCg -3' miRNA: 3'- -CUGGaCGaAAUGua-GCUGcUGUGCGG- -5' |
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| 22000 | 3' | -50.6 | NC_004914.1 | + | 59567 | 0.66 | 0.946355 |
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Target: 5'- aACCUGUcgUUGCGggGAUggGGCugGCCu -3' miRNA: 3'- cUGGACGa-AAUGUagCUG--CUGugCGG- -5' |
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| 22000 | 3' | -50.6 | NC_004914.1 | + | 38417 | 0.66 | 0.936207 |
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Target: 5'- cGGCCUGUgu--CAguucUGACGAUGCGCg -3' miRNA: 3'- -CUGGACGaaauGUa---GCUGCUGUGCGg -5' |
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| 22000 | 3' | -50.6 | NC_004914.1 | + | 39380 | 0.66 | 0.936207 |
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Target: 5'- cACCUGUUUgaaucacucUGCAUCGAUcauuuGCaACGCCa -3' miRNA: 3'- cUGGACGAA---------AUGUAGCUGc----UG-UGCGG- -5' |
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| 22000 | 3' | -50.6 | NC_004914.1 | + | 57049 | 0.68 | 0.86842 |
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Target: 5'- uGCCcgUGCgcaGCA-CGACGACugGCUg -3' miRNA: 3'- cUGG--ACGaaaUGUaGCUGCUGugCGG- -5' |
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| 22000 | 3' | -50.6 | NC_004914.1 | + | 949 | 0.68 | 0.860147 |
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Target: 5'- uGACCagGCa-UAUGaCGACGAUACGCCc -3' miRNA: 3'- -CUGGa-CGaaAUGUaGCUGCUGUGCGG- -5' |
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| 22000 | 3' | -50.6 | NC_004914.1 | + | 21393 | 0.74 | 0.578015 |
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Target: 5'- cGGCCUGaUUUU-CAUcCGGCGuACGCGCCa -3' miRNA: 3'- -CUGGAC-GAAAuGUA-GCUGC-UGUGCGG- -5' |
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| 22000 | 3' | -50.6 | NC_004914.1 | + | 46135 | 1.14 | 0.001755 |
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Target: 5'- cGACCUGCUUUACAUCGACGACACGCCg -3' miRNA: 3'- -CUGGACGAAAUGUAGCUGCUGUGCGG- -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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