miRNA: 3'- -GUGGuCGUGC---UGcCUAGUGACGGagu -5'
miRNA: 3'- -GUGGUC--GUGCUgcCUAGugACGGAGu -5'
miRNA: 3'- -GUGGUCGU--GCuGCCUAGUGACgGAgu -5'
miRNA: 3'- gUGGUCGUG-CUGCCUAGUGaCGGaGU- -5'
miRNA: 3'- -GUGGUCGUGCUGCCUAGUGACGGAGU- -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 | |||||||
| 13566 | 3' | -56 | NC_003444.1 | + | 12457 | 0.68 | 0.428727 |
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Target: 5'- aCGCC-GCGCGguuGCaGAUCGCUGCCg-- -3' miRNA: 3'- -GUGGuCGUGC---UGcCUAGUGACGGagu -5' |
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| 13566 | 3' | -56 | NC_003444.1 | + | 4007 | 0.7 | 0.3373 |
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Target: 5'- gCACCAGauCACGAauGGUCugUGUCUCc -3' miRNA: 3'- -GUGGUC--GUGCUgcCUAGugACGGAGu -5' |
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| 13566 | 3' | -56 | NC_003444.1 | + | 16197 | 0.73 | 0.216267 |
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Target: 5'- gCACCGGCAauCGcCGGAUCGCUGgCUg- -3' miRNA: 3'- -GUGGUCGU--GCuGCCUAGUGACgGAgu -5' |
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| 13566 | 3' | -56 | NC_003444.1 | + | 32172 | 0.74 | 0.188521 |
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Target: 5'- uGCCAGCACaGACGGAUUGC-GCC-CGg -3' miRNA: 3'- gUGGUCGUG-CUGCCUAGUGaCGGaGU- -5' |
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| 13566 | 3' | -56 | NC_003444.1 | + | 32050 | 1.08 | 0.000546 |
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Target: 5'- cCACCAGCACGACGGAUCACUGCCUCAu -3' miRNA: 3'- -GUGGUCGUGCUGCCUAGUGACGGAGU- -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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