miRNA: 3'- -GCCGUa--CGaaAUGCGAu-----CGUACGAca -5'
miRNA: 3'- gCCGU-ACGAAAUGCG--AUCGU-ACGACA- -5'
miRNA: 3'- -GCCGU---ACGAaaUGCGAU-CGUACGACa -5'
miRNA: 3'- -GCCGUACGAAAUGCGAUCGUACGACA- -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 | |||||||
| 12702 | 5' | -51.2 | NC_003349.1 | + | 16551 | 0.66 | 0.978404 |
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Target: 5'- aCGGCAgugGCg-UACGCUcaacccGCAUGCUa- -3' miRNA: 3'- -GCCGUa--CGaaAUGCGAu-----CGUACGAca -5' |
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| 12702 | 5' | -51.2 | NC_003349.1 | + | 65234 | 0.67 | 0.9634 |
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Target: 5'- uGGCAgUGUUUUGCGUcaUGGUAcUGUUGUa -3' miRNA: 3'- gCCGU-ACGAAAUGCG--AUCGU-ACGACA- -5' |
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| 12702 | 5' | -51.2 | NC_003349.1 | + | 35608 | 0.75 | 0.636693 |
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Target: 5'- aCGGCGauuUGCUcaACGCUAuGCAUGUUGg -3' miRNA: 3'- -GCCGU---ACGAaaUGCGAU-CGUACGACa -5' |
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| 12702 | 5' | -51.2 | NC_003349.1 | + | 73625 | 1.08 | 0.006399 |
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Target: 5'- aCGGCAUGCUUUACGCUAGCAUGCUGUu -3' miRNA: 3'- -GCCGUACGAAAUGCGAUCGUACGACA- -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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