miRNA: 3'- -GUUG---UGGAUUGUGCUU-GCCUCU--UGCu -5'
miRNA: 3'- gUUGUGGAUugUGCUu-GCCuCUUGCU- -5'
miRNA: 3'- -GUUGUGgauUGUGCUUgCCUCUUGCU- -5'
miRNA: 3'- guUGUGGA----UUGUGCUUGCCuCUUGCU- -5'
miRNA: 3'- -GUUGUGGAUUGUGCUUGCCUCUUGCU- -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 | |||||||
| 28061 | 5' | -47.9 | NC_005887.1 | + | 39331 | 0.72 | 0.771749 |
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Target: 5'- aCAGCauuACCUGACAUGAAaCGGGGGcaACGu -3' miRNA: 3'- -GUUG---UGGAUUGUGCUU-GCCUCU--UGCu -5' |
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| 28061 | 5' | -47.9 | NC_005887.1 | + | 2332 | 0.72 | 0.749928 |
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Target: 5'- uGGCAUCUAugGCGAucCGGcGGGCGAc -3' miRNA: 3'- gUUGUGGAUugUGCUu-GCCuCUUGCU- -5' |
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| 28061 | 5' | -47.9 | NC_005887.1 | + | 4285 | 0.74 | 0.634863 |
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Target: 5'- cCAACGCa--ACACGAA-GGGGAACGAc -3' miRNA: 3'- -GUUGUGgauUGUGCUUgCCUCUUGCU- -5' |
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| 28061 | 5' | -47.9 | NC_005887.1 | + | 7718 | 0.77 | 0.453802 |
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Target: 5'- -cGCGCCUcgucGACGCGAACGGcGAAUGGc -3' miRNA: 3'- guUGUGGA----UUGUGCUUGCCuCUUGCU- -5' |
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| 28061 | 5' | -47.9 | NC_005887.1 | + | 13103 | 1.1 | 0.004439 |
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Target: 5'- gCAACACCUAACACGAACGGAGAACGAc -3' miRNA: 3'- -GUUGUGGAUUGUGCUUGCCUCUUGCU- -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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