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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 | |||||||
| 30897 | 3' | -56.5 | NC_006552.1 | + | 64492 | 0.66 | 0.718189 |
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Target: 5'- aCGCuGGCGgccugGCAGGCGggGUGCUu-- -3' miRNA: 3'- cGCGuCUGCa----CGUCCGCa-UACGGcuc -5' |
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| 30897 | 3' | -56.5 | NC_006552.1 | + | 33539 | 0.67 | 0.654206 |
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Target: 5'- uGCGCAGGCGcGCA-GCG---GCCGAc -3' miRNA: 3'- -CGCGUCUGCaCGUcCGCauaCGGCUc -5' |
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| 30897 | 3' | -56.5 | NC_006552.1 | + | 26116 | 0.68 | 0.557483 |
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Target: 5'- aGCGCucauCGUGCAGGUGguagGCCaGGGc -3' miRNA: 3'- -CGCGucu-GCACGUCCGCaua-CGG-CUC- -5' |
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| 30897 | 3' | -56.5 | NC_006552.1 | + | 22192 | 0.68 | 0.546918 |
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Target: 5'- gGCGUcaucGACGUGCAGGacacgaaggGUGCCGGu -3' miRNA: 3'- -CGCGu---CUGCACGUCCgca------UACGGCUc -5' |
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| 30897 | 3' | -56.5 | NC_006552.1 | + | 11069 | 0.69 | 0.535371 |
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Target: 5'- -aGCAGGC-UGUAGGCGUgcuguacGUGCUGGa -3' miRNA: 3'- cgCGUCUGcACGUCCGCA-------UACGGCUc -5' |
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| 30897 | 3' | -56.5 | NC_006552.1 | + | 3015 | 0.69 | 0.494174 |
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Target: 5'- cGCGCGGAgcagauCGUGCuccaccaGGGCGa--GCCGAGc -3' miRNA: 3'- -CGCGUCU------GCACG-------UCCGCauaCGGCUC- -5' |
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| 30897 | 3' | -56.5 | NC_006552.1 | + | 28158 | 0.7 | 0.465232 |
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Target: 5'- gGCGCcaccGGACGccauUGCAGGCGcacgaagGCCGAa -3' miRNA: 3'- -CGCG----UCUGC----ACGUCCGCaua----CGGCUc -5' |
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| 30897 | 3' | -56.5 | NC_006552.1 | + | 40944 | 0.82 | 0.083783 |
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Target: 5'- uCGgAGACGUGCAGGCGguggaugGUGCCGGa -3' miRNA: 3'- cGCgUCUGCACGUCCGCa------UACGGCUc -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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