miRNA: 3'- -UCUUGUAGCGCCAGcCGCuuCGgUAG- -5'
miRNA: 3'- -UCUUGUAg-CGCCAGCCgCu--UCGGUag -5'
miRNA: 3'- uCUUGUAGcGCCAGCCGCU--UCGG----UAG- -5'
miRNA: 3'- ucuuGUAGCGCCaGCCGCU----UCGGUAG- -5'
miRNA: 3'- -UCUUGUAGCGCCAGCCGCUUCGGUAG- -5'
Results 21 - 25 of 25 are showing below:
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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 | |||||||
| 27666 | 3' | -54.6 | NC_005882.1 | + | 35821 | 0.69 | 0.41806 |
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Target: 5'- gGGAGUGUUGCGGUCaGCGucGCgAUCg -3' miRNA: 3'- -UCUUGUAGCGCCAGcCGCuuCGgUAG- -5' |
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| 27666 | 3' | -54.6 | NC_005882.1 | + | 9245 | 0.71 | 0.35314 |
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Target: 5'- aGGAGCGUgaGCGGUUGGgGuauAGCCAg- -3' miRNA: 3'- -UCUUGUAg-CGCCAGCCgCu--UCGGUag -5' |
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| 27666 | 3' | -54.6 | NC_005882.1 | + | 5312 | 0.72 | 0.288093 |
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Target: 5'- cGGGCGUCaUGGUCGGCGAgaAGCUgaugAUCa -3' miRNA: 3'- uCUUGUAGcGCCAGCCGCU--UCGG----UAG- -5' |
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| 27666 | 3' | -54.6 | NC_005882.1 | + | 25139 | 0.8 | 0.090752 |
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Target: 5'- ---uCAUCGCGG-CGGCGAucaaGGCCAUCg -3' miRNA: 3'- ucuuGUAGCGCCaGCCGCU----UCGGUAG- -5' |
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| 27666 | 3' | -54.6 | NC_005882.1 | + | 20645 | 1.1 | 0.000603 |
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Target: 5'- gAGAACAUCGCGGUCGGCGAAGCCAUCu -3' miRNA: 3'- -UCUUGUAGCGCCAGCCGCUUCGGUAG- -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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