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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 | |||||||
| 26259 | 3' | -55.1 | NC_005345.2 | + | 12650 | 0.66 | 0.686748 |
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Target: 5'- cCGggGCGCGGUCggCCGCCGUugGCg---- -3' miRNA: 3'- -GCaaCGCGCUAG--GGCGGUA--CGaagau -5' |
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| 26259 | 3' | -55.1 | NC_005345.2 | + | 21534 | 0.66 | 0.686748 |
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Target: 5'- ---aGCGgacCGAUCUCGCCGUGC-UCg- -3' miRNA: 3'- gcaaCGC---GCUAGGGCGGUACGaAGau -5' |
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| 26259 | 3' | -55.1 | NC_005345.2 | + | 3104 | 0.66 | 0.675619 |
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Target: 5'- ---gGCgGCGAUCCgGCCAUaCUUCg- -3' miRNA: 3'- gcaaCG-CGCUAGGgCGGUAcGAAGau -5' |
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| 26259 | 3' | -55.1 | NC_005345.2 | + | 18941 | 0.66 | 0.642022 |
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Target: 5'- --aUGCGCGAUCgUCGCCcgGCa---- -3' miRNA: 3'- gcaACGCGCUAG-GGCGGuaCGaagau -5' |
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| 26259 | 3' | -55.1 | NC_005345.2 | + | 1208 | 0.69 | 0.488252 |
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Target: 5'- ---aGgGUGAUCUCGCCAcGCUUCg- -3' miRNA: 3'- gcaaCgCGCUAGGGCGGUaCGAAGau -5' |
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| 26259 | 3' | -55.1 | NC_005345.2 | + | 27161 | 0.69 | 0.477837 |
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Target: 5'- gCGcUGCGCGGcgUCCCGCCGgagGaggUCUAc -3' miRNA: 3'- -GCaACGCGCU--AGGGCGGUa--Cga-AGAU- -5' |
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| 26259 | 3' | -55.1 | NC_005345.2 | + | 41558 | 0.74 | 0.235109 |
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Target: 5'- aCGUcgUGCGCGcgCUCGCCGUGC-UCg- -3' miRNA: 3'- -GCA--ACGCGCuaGGGCGGUACGaAGau -5' |
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| 26259 | 3' | -55.1 | NC_005345.2 | + | 46802 | 1.07 | 0.001133 |
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Target: 5'- cCGUUGCGCGAUCCCGCCAUGCUUCUAc -3' miRNA: 3'- -GCAACGCGCUAGGGCGGUACGAAGAU- -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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