miRNA: 3'- aGcCGUUGCG---------AC--UCACGCGG--------------CGGACG- -5'
miRNA: 3'- -AGCCGUUGCGaC-UCaCG---------CGGCGGacg -5'
miRNA: 3'- aGCCGU------UGCGACUCa------CG--------------CGGCGGACG- -5'
miRNA: 3'- -AGCCGUUGCGACU--CACg---CGGCGGA---CG- -5'
Results 41 - 44 of 44 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 | |||||||
| 12470 | 3' | -59.2 | NC_003324.1 | + | 49837 | 0.66 | 0.516468 |
|
Target: 5'- aCuGCAGCGUuccacgugaUGguGGUGCGCCcgcugaaccaucccGCCUGCa -3' miRNA: 3'- aGcCGUUGCG---------AC--UCACGCGG--------------CGGACG- -5' |
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| 12470 | 3' | -59.2 | NC_003324.1 | + | 22685 | 0.66 | 0.51955 |
|
Target: 5'- cUCGGCAACGCgGcAG-GCagccaaaagGCCGCCg-- -3' miRNA: 3'- -AGCCGUUGCGaC-UCaCG---------CGGCGGacg -5' |
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| 12470 | 3' | -59.2 | NC_003324.1 | + | 57364 | 0.66 | 0.526766 |
|
Target: 5'- gCGGCAcgaccgGCGUUGAGcaucugaGCgcaauagcaggcugGCCGCUUGCg -3' miRNA: 3'- aGCCGU------UGCGACUCa------CG--------------CGGCGGACG- -5' |
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| 12470 | 3' | -59.2 | NC_003324.1 | + | 52654 | 0.66 | 0.529871 |
|
Target: 5'- gUCGGCGAUGUUGAcgGUGauagGCUGUCUcauGCu -3' miRNA: 3'- -AGCCGUUGCGACU--CACg---CGGCGGA---CG- -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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