miRNA: 3'- aGGgGCAGGgGGCUGA-GCCA--CGCCUg -5'
miRNA: 3'- -AGGGG-----CAGGGggCugaGCCaCGCCUG- -5'
miRNA: 3'- -AGGGGC--AGGG-GGCUGaGCCACG---------CCUG- -5'
miRNA: 3'- -AGGGGCa----G-GGGGCuGAGCCACGCCUG- -5'
miRNA: 3'- -AGGGGCAGGGGGCUGAGCCACGCCUG- -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 | |||||||
| 7361 | 3' | -63.4 | NC_001900.1 | + | 18821 | 0.66 | 0.337009 |
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Target: 5'- aCCgCGUUCaCCGACUcCGGUaaGCGGAa -3' miRNA: 3'- aGGgGCAGGgGGCUGA-GCCA--CGCCUg -5' |
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| 7361 | 3' | -63.4 | NC_001900.1 | + | 43012 | 0.66 | 0.314427 |
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Target: 5'- aUCCCUaccaaGUCCCuuGg--CGGcGCGGACa -3' miRNA: 3'- -AGGGG-----CAGGGggCugaGCCaCGCCUG- -5' |
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| 7361 | 3' | -63.4 | NC_001900.1 | + | 24882 | 0.66 | 0.314427 |
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Target: 5'- gUCCCCGaaUCCUgCCGACaUGGUGUaccgagaccGGACc -3' miRNA: 3'- -AGGGGC--AGGG-GGCUGaGCCACG---------CCUG- -5' |
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| 7361 | 3' | -63.4 | NC_001900.1 | + | 29106 | 0.72 | 0.117523 |
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Target: 5'- cUCCUCGgugagCuUCCCG-UUCGGUGCGGGCa -3' miRNA: 3'- -AGGGGCa----G-GGGGCuGAGCCACGCCUG- -5' |
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| 7361 | 3' | -63.4 | NC_001900.1 | + | 42176 | 1.09 | 0.000156 |
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Target: 5'- aUCCCCGUCCCCCGACUCGGUGCGGACg -3' miRNA: 3'- -AGGGGCAGGGGGCUGAGCCACGCCUG- -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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