miRNA: 3'- aCCaaUGG-------------UCGGCCU--UGUUGACCGCc -5'
miRNA: 3'- aCCaau-GGU-CGGCCUUGu-----UGACCGCC- -5'
miRNA: 3'- aCCaaugGUCGGCCuUGUUGa--CCGCC- -5'
miRNA: 3'- -ACCaa--UGG--UCGGCCUUGU----UGACCGCc -5'
miRNA: 3'- -ACCAAUGGUCGGCCUUGUUGACCGCC- -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 | |||||||
| 22305 | 3' | -54.1 | NC_005045.1 | + | 13202 | 0.71 | 0.432759 |
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Target: 5'- aGGc-GCCuucagcgagauggGGCCGGAugGCAACUGGCGc -3' miRNA: 3'- aCCaaUGG-------------UCGGCCU--UGUUGACCGCc -5' |
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| 22305 | 3' | -54.1 | NC_005045.1 | + | 8615 | 0.72 | 0.386076 |
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Target: 5'- aGGgccuCCAcGCCGGGGCcucgguGCUGGUGGc -3' miRNA: 3'- aCCaau-GGU-CGGCCUUGu-----UGACCGCC- -5' |
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| 22305 | 3' | -54.1 | NC_005045.1 | + | 14938 | 0.73 | 0.341997 |
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Target: 5'- cGGga--CAGCCGGuACAGCaggGGCGGc -3' miRNA: 3'- aCCaaugGUCGGCCuUGUUGa--CCGCC- -5' |
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| 22305 | 3' | -54.1 | NC_005045.1 | + | 18688 | 0.77 | 0.192016 |
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Target: 5'- cUGGggcgGCCcuGGCCGGAGCGugauGCUGGCGc -3' miRNA: 3'- -ACCaa--UGG--UCGGCCUUGU----UGACCGCc -5' |
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| 22305 | 3' | -54.1 | NC_005045.1 | + | 8285 | 1.1 | 0.00078 |
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Target: 5'- gUGGUUACCAGCCGGAACAACUGGCGGu -3' miRNA: 3'- -ACCAAUGGUCGGCCUUGUUGACCGCC- -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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