miRNA: 3'- gcaaCGCCGCacu-----UCUUCC-CGCAGCc -5'
miRNA: 3'- gcaaCGCCGCacuuCUUCCCGCAGCc -5'
miRNA: 3'- -GCaa--CGCCGCACU---UCUuc--------CCGCAGCC- -5'
miRNA: 3'- -GCAACGCCGCACUUCUUCCCGCAGCC- -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 | |||||||
| 22053 | 5' | -55.2 | NC_004927.1 | + | 20324 | 0.66 | 0.818704 |
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Target: 5'- ---aGCGGCGgccccaccGGAGGGaGCGUCGu -3' miRNA: 3'- gcaaCGCCGCacu-----UCUUCC-CGCAGCc -5' |
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| 22053 | 5' | -55.2 | NC_004927.1 | + | 59753 | 0.71 | 0.553178 |
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Target: 5'- ---aGCGGCGgc--GAAGGGCGUUGa -3' miRNA: 3'- gcaaCGCCGCacuuCUUCCCGCAGCc -5' |
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| 22053 | 5' | -55.2 | NC_004927.1 | + | 67802 | 0.72 | 0.482151 |
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Target: 5'- cCGggcgGCGGCGUGAcgcAGAcugcucccucGGCGUCGGg -3' miRNA: 3'- -GCaa--CGCCGCACU---UCUuc--------CCGCAGCC- -5' |
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| 22053 | 5' | -55.2 | NC_004927.1 | + | 28800 | 1.1 | 0.001567 |
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Target: 5'- cCGUUGCGGCGUGAAGAAGGGCGUCGGc -3' miRNA: 3'- -GCAACGCCGCACUUCUUCCCGCAGCC- -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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