miRNA: 3'- aGCGG----AAGCgGCCGU------CGGAGCCGCUA- -5'
miRNA: 3'- -AGCGgaaGCGGCCGuCGG-----AG-CCGCUA- -5'
miRNA: 3'- agCGgaAGCGGCCG----UCGGAGCCGcua -5'
miRNA: 3'- agCGGAag--CGGCcGUCGGaGCCGCUa -5'
Results 41 - 44 of 44 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12456 | 5' | -62.4 | NC_003324.1 | + | 50681 | 0.67 | 0.280998 |
|
Target: 5'- gCGCCaaucUUCGaCGGUGacccccGCCUCGGCGGUa -3' miRNA: 3'- aGCGG----AAGCgGCCGU------CGGAGCCGCUA- -5' |
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| 12456 | 5' | -62.4 | NC_003324.1 | + | 52380 | 0.66 | 0.339761 |
|
Target: 5'- gUCGCagaCGCCGGCcGCCccgaaUCgGGCGGUa -3' miRNA: 3'- -AGCGgaaGCGGCCGuCGG-----AG-CCGCUA- -5' |
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| 12456 | 5' | -62.4 | NC_003324.1 | + | 53572 | 0.7 | 0.178537 |
|
Target: 5'- -gGCa-UCGCCGGCauucGGCCUCGGCu-- -3' miRNA: 3'- agCGgaAGCGGCCG----UCGGAGCCGcua -5' |
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| 12456 | 5' | -62.4 | NC_003324.1 | + | 56135 | 0.66 | 0.372318 |
|
Target: 5'- -aGCCUggaaGCCGaCGGCCgUGGCGAc -3' miRNA: 3'- agCGGAag--CGGCcGUCGGaGCCGCUa -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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