miRNA: 3'- cGGUa-Gg--AACGCGACUAGCa---GGAGCg -5'
miRNA: 3'- -CGg-UAGGAa---CGCGACuaGCAGGAGcg -5'
miRNA: 3'- -CGGuAGGaaCGCGaCUaGCA--GGAGCG- -5'
miRNA: 3'- -CGGUAGGAaC-GC-GAcu-AGCAGGAGCG- -5'
miRNA: 3'- -CGguaGGAACGCGAcUAGC---------AGGAGCG- -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 | |||||||
| 23210 | 5' | -54.2 | NC_005259.1 | + | 58429 | 0.69 | 0.695742 |
|
Target: 5'- aCCGggCagaUUGCGCUGAUCGguggCCUUGg -3' miRNA: 3'- cGGUa-Gg--AACGCGACUAGCa---GGAGCg -5' |
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| 23210 | 5' | -54.2 | NC_005259.1 | + | 59035 | 0.74 | 0.387454 |
|
Target: 5'- aGCagAUCCUugagGCGCUGcgCGUCCUCa- -3' miRNA: 3'- -CGg-UAGGAa---CGCGACuaGCAGGAGcg -5' |
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| 23210 | 5' | -54.2 | NC_005259.1 | + | 59392 | 0.66 | 0.816694 |
|
Target: 5'- uGCC-UCCgcGCGC-GAgCGUgaCCUCGCg -3' miRNA: 3'- -CGGuAGGaaCGCGaCUaGCA--GGAGCG- -5' |
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| 23210 | 5' | -54.2 | NC_005259.1 | + | 62962 | 0.71 | 0.576643 |
|
Target: 5'- cGCUGUCCUcGuCGuCUuccUCGUCCUCGCg -3' miRNA: 3'- -CGGUAGGAaC-GC-GAcu-AGCAGGAGCG- -5' |
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| 23210 | 5' | -54.2 | NC_005259.1 | + | 68258 | 0.73 | 0.424007 |
|
Target: 5'- cGCag-CCUUGCGCUcGUCGuaggcaccgUCCUCGCc -3' miRNA: 3'- -CGguaGGAACGCGAcUAGC---------AGGAGCG- -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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