miRNA: 3'- -CCGUUGGcGaccgCUCCGUAGUAG-GG- -5'
miRNA: 3'- -CCGUUGG-CgaCCGCU--------CCGUaGUAG-GG- -5'
miRNA: 3'- cCGUUGGCGac------CGCUCCGUAguAGGG- -5'
miRNA: 3'- -CCGUUG-GCGACCGCU-CCGUa---GUagGG- -5'
miRNA: 3'- -CCGU--------UGGCGaccGCUC-CGUAGUaGGG- -5'
Results 41 - 45 of 45 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 | |||||||
| 12472 | 5' | -56.7 | NC_003324.1 | + | 47071 | 0.66 | 0.629136 |
|
Target: 5'- aGGCAGCC-Cga--GGGGCGUUAUCgCCg -3' miRNA: 3'- -CCGUUGGcGaccgCUCCGUAGUAG-GG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 25629 | 0.66 | 0.629136 |
|
Target: 5'- aGGCGGCCaGaaGGCGAaauuccggGGCAaCGUCgCCg -3' miRNA: 3'- -CCGUUGG-CgaCCGCU--------CCGUaGUAG-GG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 7844 | 0.66 | 0.629136 |
|
Target: 5'- uGCGAUCGCgccucccuGCGAGGCGUgcUCUCg -3' miRNA: 3'- cCGUUGGCGac------CGCUCCGUAguAGGG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 24991 | 0.66 | 0.650836 |
|
Target: 5'- gGGCGGCgUGCUGGCGAuGGUGgugaCAaaCCg -3' miRNA: 3'- -CCGUUG-GCGACCGCU-CCGUa---GUagGG- -5' |
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| 12472 | 5' | -56.7 | NC_003324.1 | + | 14991 | 0.66 | 0.661665 |
|
Target: 5'- cGGCAuguuguugACCGCgu-CGAGcGCGUCG-CCCu -3' miRNA: 3'- -CCGU--------UGGCGaccGCUC-CGUAGUaGGG- -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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