miRNA: 3'- -GGGUugCGc-CCCCGcgUCCACUCGuu -5'
miRNA: 3'- -GG-GUUGCGCCC-CCGCGuCcaCUCGuu -5'
miRNA: 3'- gGGUUgCGCCCCCGCgUCCa-----CUCGUu -5'
miRNA: 3'- gGGUUGC-GCCCCCG---------CGUCCaCUCGUU- -5'
miRNA: 3'- -GGGUUGCGCCCCCGCGUCCACUCGUU- -5'
Results 1 - 5 of 5 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 | |||||||
| 319 | 3' | -61.4 | AC_000010.1 | + | 6561 | 0.66 | 0.294893 |
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Target: 5'- cCCCAugGCauGGGGU--GGGUGAGUg- -3' miRNA: 3'- -GGGUugCGc-CCCCGcgUCCACUCGuu -5' |
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| 319 | 3' | -61.4 | AC_000010.1 | + | 12102 | 0.67 | 0.246761 |
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Target: 5'- cCCgCAAUGCGGGcGGCGCuGcaGAGCc- -3' miRNA: 3'- -GG-GUUGCGCCC-CCGCGuCcaCUCGuu -5' |
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| 319 | 3' | -61.4 | AC_000010.1 | + | 9259 | 0.68 | 0.210851 |
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Target: 5'- uUCAG-GCGGGGGCGgAGGaggaggGGGCAc -3' miRNA: 3'- gGGUUgCGCCCCCGCgUCCa-----CUCGUu -5' |
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| 319 | 3' | -61.4 | AC_000010.1 | + | 30597 | 0.69 | 0.161011 |
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Target: 5'- aUUAGCGaCGGGGGUuaaggcaucGCAGGgGAGCAAc -3' miRNA: 3'- gGGUUGC-GCCCCCG---------CGUCCaCUCGUU- -5' |
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| 319 | 3' | -61.4 | AC_000010.1 | + | 13860 | 1.07 | 0.00017 |
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Target: 5'- gCCCAACGCGGGGGCGCAGGUGAGCAAa -3' miRNA: 3'- -GGGUUGCGCCCCCGCGUCCACUCGUU- -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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