miRNA: 3'- aUGGACGAuuCGGCUCUggaAGCAGG- -5'
miRNA: 3'- aUGGa--CGA-UUCGGCUCUGgAAGCa--GG- -5'
miRNA: 3'- aUGGACGAUUCgGCUC-UGGAagCAGG- -5'
miRNA: 3'- aUGGACG-------------AUUCGGCUCUGGaAgCAGG- -5'
miRNA: 3'- -AUGGACGAUUCGGCUCUGGAAGCAGG- -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 | |||||||
| 22324 | 3' | -53.6 | NC_005045.1 | + | 30449 | 0.7 | 0.454342 |
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Target: 5'- gACCUGCUu-GCCGAGG---UUGUCCu -3' miRNA: 3'- aUGGACGAuuCGGCUCUggaAGCAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 28538 | 0.71 | 0.434096 |
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Target: 5'- cGCCgagGCUcAGGCCGGGGCgUUCGgcgUCa -3' miRNA: 3'- aUGGa--CGA-UUCGGCUCUGgAAGCa--GG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 11705 | 0.75 | 0.263748 |
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Target: 5'- gACCUGCUGAG-CGAGuACCU--GUCCg -3' miRNA: 3'- aUGGACGAUUCgGCUC-UGGAagCAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 33069 | 0.75 | 0.26305 |
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Target: 5'- cGCCUGCgcuacagcgacggUGGGCCGGGACUgUgGUCCc -3' miRNA: 3'- aUGGACG-------------AUUCGGCUCUGGaAgCAGG- -5' |
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| 22324 | 3' | -53.6 | NC_005045.1 | + | 15906 | 1.11 | 0.00068 |
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Target: 5'- gUACCUGCUAAGCCGAGACCUUCGUCCg -3' miRNA: 3'- -AUGGACGAUUCGGCUCUGGAAGCAGG- -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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