miRNA: 3'- aaGCUGGguaCGGUGGUCU--GUCCCac -5'
miRNA: 3'- aaGCuGGGUACGGUGGUcugUCCCAC- -5'
miRNA: 3'- aaGC--UGGGUACGGUGGUCUG----------UCCCac -5'
miRNA: 3'- -AAGCUGGGUACGGUGGUCUGUCCCAC- -5'
Results 1 - 4 of 4 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 | |||||||
| 27383 | 5' | -57.9 | NC_005857.1 | + | 23257 | 0.66 | 0.52108 |
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Target: 5'- -cUGGCCag-GCCGCCGGAguCGGGGa- -3' miRNA: 3'- aaGCUGGguaCGGUGGUCU--GUCCCac -5' |
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| 27383 | 5' | -57.9 | NC_005857.1 | + | 49410 | 0.71 | 0.252226 |
|
Target: 5'- -aCG-CCCAUGCCGCCAccgAGGGUGc -3' miRNA: 3'- aaGCuGGGUACGGUGGUcugUCCCAC- -5' |
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| 27383 | 5' | -57.9 | NC_005857.1 | + | 21438 | 0.74 | 0.160202 |
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Target: 5'- -aCGgcACCCGUGCCGCCAGACugaccgcaggAGGGg- -3' miRNA: 3'- aaGC--UGGGUACGGUGGUCUG----------UCCCac -5' |
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| 27383 | 5' | -57.9 | NC_005857.1 | + | 45511 | 1.06 | 0.000681 |
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Target: 5'- uUUCGACCCAUGCCACCAGACAGGGUGa -3' miRNA: 3'- -AAGCUGGGUACGGUGGUCUGUCCCAC- -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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