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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 | |||||||
| 28392 | 5' | -54.1 | NC_005946.1 | + | 98602 | 0.67 | 0.877781 |
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Target: 5'- aGCGGACAggGUGAcguuaaGGCUGGCguugGUc- -3' miRNA: 3'- cCGUCUGUaaCACU------CCGGCCGa---CAuc -5' |
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| 28392 | 5' | -54.1 | NC_005946.1 | + | 17243 | 0.67 | 0.870213 |
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Target: 5'- -aUAGAgGUUGUcaGAGGCCagggGGCUGUAc -3' miRNA: 3'- ccGUCUgUAACA--CUCCGG----CCGACAUc -5' |
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| 28392 | 5' | -54.1 | NC_005946.1 | + | 83027 | 0.68 | 0.811135 |
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Target: 5'- cGGCAGACAacaucaUGgccgGAGGCaCGGCgagGGg -3' miRNA: 3'- -CCGUCUGUa-----ACa---CUCCG-GCCGacaUC- -5' |
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| 28392 | 5' | -54.1 | NC_005946.1 | + | 13668 | 0.68 | 0.792537 |
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Target: 5'- -cCAGACAggagGUGGGGaUCGGCUGcGGa -3' miRNA: 3'- ccGUCUGUaa--CACUCC-GGCCGACaUC- -5' |
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| 28392 | 5' | -54.1 | NC_005946.1 | + | 91636 | 0.69 | 0.77331 |
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Target: 5'- gGGCAGgGCAgcGUGAggcaGGCCGGC-GUAc -3' miRNA: 3'- -CCGUC-UGUaaCACU----CCGGCCGaCAUc -5' |
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| 28392 | 5' | -54.1 | NC_005946.1 | + | 19865 | 0.71 | 0.638689 |
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Target: 5'- cGUGGACAUUggcGUGAGGaCGGCcGUAGg -3' miRNA: 3'- cCGUCUGUAA---CACUCCgGCCGaCAUC- -5' |
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| 28392 | 5' | -54.1 | NC_005946.1 | + | 53287 | 1.11 | 0.002112 |
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Target: 5'- cGGCAGACAUUGUGAGGCCGGCUGUAGc -3' miRNA: 3'- -CCGUCUGUAACACUCCGGCCGACAUC- -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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