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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 | |||||||
| 19552 | 5' | -49.6 | NC_004685.1 | + | 11891 | 0.66 | 0.979455 |
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Target: 5'- aCGgcccgCGCCUUGUUCuCUGAG-ACCg -3' miRNA: 3'- gGCaa---GUGGAGCAAGcGAUUCaUGGa -5' |
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| 19552 | 5' | -49.6 | NC_004685.1 | + | 18978 | 0.66 | 0.971198 |
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Target: 5'- cCUGUUCGCCagCGUgUGCUGgauGGUgGCCUg -3' miRNA: 3'- -GGCAAGUGGa-GCAaGCGAU---UCA-UGGA- -5' |
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| 19552 | 5' | -49.6 | NC_004685.1 | + | 9428 | 0.67 | 0.95681 |
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Target: 5'- gCGUugUCGCCcgcgCGUugUCGCU-GGUGCCg -3' miRNA: 3'- gGCA--AGUGGa---GCA--AGCGAuUCAUGGa -5' |
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| 19552 | 5' | -49.6 | NC_004685.1 | + | 41253 | 0.68 | 0.943241 |
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Target: 5'- gCGUUCGgCUUGgUCGCgGAGUugCUu -3' miRNA: 3'- gGCAAGUgGAGCaAGCGaUUCAugGA- -5' |
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| 19552 | 5' | -49.6 | NC_004685.1 | + | 43346 | 0.68 | 0.92716 |
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Target: 5'- cUCGgccaUCGCCUCG-UCGCUGAGcauCCc -3' miRNA: 3'- -GGCa---AGUGGAGCaAGCGAUUCau-GGa -5' |
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| 19552 | 5' | -49.6 | NC_004685.1 | + | 1395 | 0.71 | 0.83806 |
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Target: 5'- cUCGaUCGCCUCGUcgccUCGgCUGAGguagACCUu -3' miRNA: 3'- -GGCaAGUGGAGCA----AGC-GAUUCa---UGGA- -5' |
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| 19552 | 5' | -49.6 | NC_004685.1 | + | 69103 | 1.1 | 0.005063 |
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Target: 5'- gCCGUUCACCUCGUUCGCUAAGUACCUc -3' miRNA: 3'- -GGCAAGUGGAGCAAGCGAUUCAUGGA- -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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