miRNA: 3'- aGGUUCGCGCGg-----GAC-CUGaGGU--ACUG- -5'
miRNA: 3'- agGUUCGCGCgGGac--CUGAGGUA-----------CUG- -5'
miRNA: 3'- agGUUCGCGCGGgAcCUGa--GGUACUg -5'
miRNA: 3'- aGGUUCGCGCGGGaCCUGa---GGUa----CUG- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 11426 | 5' | -57.9 | NC_003085.1 | + | 45215 | 0.66 | 0.514112 |
|
Target: 5'- gCCAAGCGCGCgaagcgCUGcGGC-CCGgcUGACg -3' miRNA: 3'- aGGUUCGCGCGg-----GAC-CUGaGGU--ACUG- -5' |
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| 11426 | 5' | -57.9 | NC_003085.1 | + | 45494 | 0.66 | 0.535249 |
|
Target: 5'- -aCAAGCGCGgCCgucuGGCUCCAUccccgggccgcGACa -3' miRNA: 3'- agGUUCGCGCgGGac--CUGAGGUA-----------CUG- -5' |
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| 11426 | 5' | -57.9 | NC_003085.1 | + | 45600 | 0.66 | 0.493324 |
|
Target: 5'- -gCGGGCGCGCCgUcGACgcgCCGUGGu -3' miRNA: 3'- agGUUCGCGCGGgAcCUGa--GGUACUg -5' |
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| 11426 | 5' | -57.9 | NC_003085.1 | + | 48854 | 0.77 | 0.106916 |
|
Target: 5'- cUCGAGCGCGCCCaGGACggcgCCAgucgaGACa -3' miRNA: 3'- aGGUUCGCGCGGGaCCUGa---GGUa----CUG- -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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