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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 | |||||||
| 24239 | 5' | -58.3 | NC_005263.2 | + | 33953 | 0.66 | 0.488557 |
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Target: 5'- --gCCGGCCCGAagucgccaaggcggCCGCGCUGg---- -3' miRNA: 3'- aagGGCCGGGUUa-------------GGCGCGACaacag -5' |
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| 24239 | 5' | -58.3 | NC_005263.2 | + | 44958 | 0.66 | 0.474216 |
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Target: 5'- -gCCCGGCCaCGugcucGUCgGUGCUGaccUGUCc -3' miRNA: 3'- aaGGGCCGG-GU-----UAGgCGCGACa--ACAG- -5' |
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| 24239 | 5' | -58.3 | NC_005263.2 | + | 23072 | 0.66 | 0.464103 |
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Target: 5'- -gCCCGGUCUug-CUgGCGCUGUUGg- -3' miRNA: 3'- aaGGGCCGGGuuaGG-CGCGACAACag -5' |
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| 24239 | 5' | -58.3 | NC_005263.2 | + | 12588 | 0.66 | 0.464103 |
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Target: 5'- -gCCgGGCgCAGUCgGCGCgccagUGUCa -3' miRNA: 3'- aaGGgCCGgGUUAGgCGCGaca--ACAG- -5' |
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| 24239 | 5' | -58.3 | NC_005263.2 | + | 16857 | 0.66 | 0.454103 |
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Target: 5'- -gCCCGGCgCCGcgCCGCGCg------ -3' miRNA: 3'- aaGGGCCG-GGUuaGGCGCGacaacag -5' |
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| 24239 | 5' | -58.3 | NC_005263.2 | + | 24032 | 0.67 | 0.403162 |
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Target: 5'- --gCCGGaucggucgacguguCCgGGUUCGCGCUGUUGUUg -3' miRNA: 3'- aagGGCC--------------GGgUUAGGCGCGACAACAG- -5' |
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| 24239 | 5' | -58.3 | NC_005263.2 | + | 4425 | 1.06 | 0.000598 |
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Target: 5'- cUUCCCGGCCCAAUCCGCGCUGUUGUCc -3' miRNA: 3'- -AAGGGCCGGGUUAGGCGCGACAACAG- -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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