miRNA: 3'- gUCUAGGgCaa--GCUACUGGCGUU--CGu -5'
miRNA: 3'- -GUCUaGGGCaAGCUA------CUGGCGUUCGU- -5'
miRNA: 3'- gUCUAGGGca---AGCUACUGg----CGUUCGu -5'
miRNA: 3'- gUCUAGGGCaAGCUaCUGGCG-UUCGU- -5'
miRNA: 3'- -GUcUAGgGCaaGCUACU-GGCGUUCGU- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 7224 | 3' | -53 | NC_001900.1 | + | 27566 | 0.69 | 0.625853 |
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Target: 5'- uGGAUCUgGgcugCGAUGGCCGCGAacGCc -3' miRNA: 3'- gUCUAGGgCaa--GCUACUGGCGUU--CGu -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 25468 | 0.7 | 0.580813 |
|
Target: 5'- aUAGAcCCCG-UCGGUgaugccGACCGUAGGCGc -3' miRNA: 3'- -GUCUaGGGCaAGCUA------CUGGCGUUCGU- -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 40397 | 0.72 | 0.462135 |
|
Target: 5'- gGGAUCCCagaugUCGAUGACgaacaGCAGGCc -3' miRNA: 3'- gUCUAGGGca---AGCUACUGg----CGUUCGu -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 19354 | 0.76 | 0.250037 |
|
Target: 5'- gGGAUCUCGaUCGA-GACCGCgAAGCAg -3' miRNA: 3'- gUCUAGGGCaAGCUaCUGGCG-UUCGU- -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 23407 | 0.66 | 0.809336 |
|
Target: 5'- uCAcGUCgCGg-CGAUGAuCCGCGAGCAc -3' miRNA: 3'- -GUcUAGgGCaaGCUACU-GGCGUUCGU- -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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