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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 | |||||||
| 22844 | 3' | -48.1 | NC_005135.1 | + | 73030 | 0.66 | 0.999594 |
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Target: 5'- aCAGGccuucgAGACuGUCGGCAUCUUcauauGUCAu -3' miRNA: 3'- -GUCCua----UUUGcCAGUCGUAGAG-----UAGU- -5' |
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| 22844 | 3' | -48.1 | NC_005135.1 | + | 75022 | 0.66 | 0.999491 |
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Target: 5'- uGGGAUGAAauCGGUgAGaUAUUUCAUCc -3' miRNA: 3'- gUCCUAUUU--GCCAgUC-GUAGAGUAGu -5' |
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| 22844 | 3' | -48.1 | NC_005135.1 | + | 155306 | 0.67 | 0.999035 |
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Target: 5'- -uGGAUAuccGACGGUUGGUAUCg-GUCAc -3' miRNA: 3'- guCCUAU---UUGCCAGUCGUAGagUAGU- -5' |
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| 22844 | 3' | -48.1 | NC_005135.1 | + | 160584 | 0.67 | 0.999035 |
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Target: 5'- cCAGGAccggccauAACGaaGUCAGCGuUCUCAUCc -3' miRNA: 3'- -GUCCUau------UUGC--CAGUCGU-AGAGUAGu -5' |
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| 22844 | 3' | -48.1 | NC_005135.1 | + | 66242 | 0.68 | 0.997038 |
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Target: 5'- -cGGAgccaacuguUGAAggUGGUCAGCAUCUCAa-- -3' miRNA: 3'- guCCU---------AUUU--GCCAGUCGUAGAGUagu -5' |
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| 22844 | 3' | -48.1 | NC_005135.1 | + | 3353 | 0.69 | 0.995872 |
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Target: 5'- uGGGAUcuucAGCGGUUGGCAUgaCAUCu -3' miRNA: 3'- gUCCUAu---UUGCCAGUCGUAgaGUAGu -5' |
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| 22844 | 3' | -48.1 | NC_005135.1 | + | 4568 | 0.69 | 0.995872 |
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Target: 5'- aGGGGUAaauagaaccuuGACcauccgGGUCAGCAUC-CGUCAu -3' miRNA: 3'- gUCCUAU-----------UUG------CCAGUCGUAGaGUAGU- -5' |
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| 22844 | 3' | -48.1 | NC_005135.1 | + | 144711 | 1.1 | 0.01581 |
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Target: 5'- cCAGGAUAAACGGUCAGCAUCUCAUCAa -3' miRNA: 3'- -GUCCUAUUUGCCAGUCGUAGAGUAGU- -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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