miRNA: 3'- -UCGU-CGGUa--------------AGCGUUUCUG---UCGGGUg -5'
miRNA: 3'- uCGUCGGUA--------AgCGUUu--CUGUCGGGUg -5'
miRNA: 3'- -UCGuCGGuaaGCGUU---UCUGUCGG-GUG- -5'
miRNA: 3'- -UCGUCGGu-AAGCGUuuCUGUc--GGGUG- -5'
Results 21 - 24 of 24 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 | |||||||
| 17485 | 3' | -53.9 | NC_004456.1 | + | 33485 | 0.68 | 0.554726 |
|
Target: 5'- cGGCAgGCCAaaaagcuggagagaaUCGCAGAGAUagaAGCCCGu -3' miRNA: 3'- -UCGU-CGGUa--------------AGCGUUUCUG---UCGGGUg -5' |
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| 17485 | 3' | -53.9 | NC_004456.1 | + | 39549 | 0.69 | 0.476616 |
|
Target: 5'- cGUAGCCAUaccuguuaUgGCGGgauGACAGCCCGg -3' miRNA: 3'- uCGUCGGUA--------AgCGUUu--CUGUCGGGUg -5' |
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| 17485 | 3' | -53.9 | NC_004456.1 | + | 40237 | 0.68 | 0.520039 |
|
Target: 5'- aGGCuGCUuc-CGCAAucaGGGCAGCCgCACu -3' miRNA: 3'- -UCGuCGGuaaGCGUU---UCUGUCGG-GUG- -5' |
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| 17485 | 3' | -53.9 | NC_004456.1 | + | 41987 | 0.72 | 0.315946 |
|
Target: 5'- gAGCAGCCucUUCGCGuuGAUAuucCCCGCg -3' miRNA: 3'- -UCGUCGGu-AAGCGUuuCUGUc--GGGUG- -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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