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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 | |||||||
| 27542 | 3' | -48.7 | NC_005881.1 | + | 124585 | 0.67 | 0.999545 |
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Target: 5'- gACAUUCCUGAaauACCCAUAGaaGAa-- -3' miRNA: 3'- aUGUAAGGAUU---UGGGUGUUggCUgcc -5' |
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| 27542 | 3' | -48.7 | NC_005881.1 | + | 94298 | 0.67 | 0.999302 |
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Target: 5'- -----aUCUGAACCCAaGGCUGugGGa -3' miRNA: 3'- auguaaGGAUUUGGGUgUUGGCugCC- -5' |
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| 27542 | 3' | -48.7 | NC_005881.1 | + | 17719 | 0.68 | 0.998731 |
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Target: 5'- -cCAUUCCUAAauacGCCCGuggAGCCGAaaaGGg -3' miRNA: 3'- auGUAAGGAUU----UGGGUg--UUGGCUg--CC- -5' |
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| 27542 | 3' | -48.7 | NC_005881.1 | + | 155401 | 0.68 | 0.998162 |
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Target: 5'- gUAUA-UCCgGAGCCCACGACUGAgcuuUGGc -3' miRNA: 3'- -AUGUaAGGaUUUGGGUGUUGGCU----GCC- -5' |
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| 27542 | 3' | -48.7 | NC_005881.1 | + | 196722 | 0.68 | 0.997805 |
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Target: 5'- uUGCAgaagUCC--AGCCCACAACaUGGCGa -3' miRNA: 3'- -AUGUa---AGGauUUGGGUGUUG-GCUGCc -5' |
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| 27542 | 3' | -48.7 | NC_005881.1 | + | 156792 | 0.71 | 0.987012 |
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Target: 5'- aACAUUCUUAuggccaugaAACCCACAGgUGGCGu -3' miRNA: 3'- aUGUAAGGAU---------UUGGGUGUUgGCUGCc -5' |
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| 27542 | 3' | -48.7 | NC_005881.1 | + | 133801 | 0.94 | 0.153724 |
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Target: 5'- cUACAUUUCcAAACCCACAACCGACGGu -3' miRNA: 3'- -AUGUAAGGaUUUGGGUGUUGGCUGCC- -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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