miRNA: 3'- -UUAGGCGCaaua-----GGGGGUGGc-UGGGG- -5'
miRNA: 3'- -UUAgGCGcaa-UAGGGGGUGGCUGGGg -5'
miRNA: 3'- uuAGGCGCaa---UAGGGG-GUGGC-------UGGGG- -5'
miRNA: 3'- uuaGGCGCaAUAGGGGGUGGCUGGGG- -5'
miRNA: 3'- -UUAGGCGCAAUAGGGGGUGGCUGGGG- -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 | |||||||
| 20450 | 3' | -57.6 | NC_004688.1 | + | 47006 | 0.7 | 0.567613 |
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Target: 5'- aGAUCCGCGgggcaagcgCUCCCACCacGCCUCg -3' miRNA: 3'- -UUAGGCGCaaua-----GGGGGUGGc-UGGGG- -5' |
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| 20450 | 3' | -57.6 | NC_004688.1 | + | 14293 | 0.72 | 0.425244 |
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Target: 5'- cGAUgCGCcccaAUCCCCCGCCGGCUCg -3' miRNA: 3'- -UUAgGCGcaa-UAGGGGGUGGCUGGGg -5' |
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| 20450 | 3' | -57.6 | NC_004688.1 | + | 95363 | 0.72 | 0.424352 |
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Target: 5'- -uUCCGCGgucccGUCCCCgCACCGcuuaacgGCCCUc -3' miRNA: 3'- uuAGGCGCaa---UAGGGG-GUGGC-------UGGGG- -5' |
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| 20450 | 3' | -57.6 | NC_004688.1 | + | 10444 | 0.73 | 0.373812 |
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Target: 5'- --gUCGCGgUAUUCCUCGCCGACCUUg -3' miRNA: 3'- uuaGGCGCaAUAGGGGGUGGCUGGGG- -5' |
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| 20450 | 3' | -57.6 | NC_004688.1 | + | 32059 | 1.09 | 0.001497 |
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Target: 5'- cAAUCCGCGUUAUCCCCCACCGACCCCu -3' miRNA: 3'- -UUAGGCGCAAUAGGGGGUGGCUGGGG- -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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