miRNA: 3'- -UGUAGgcguaUCUCCCG--UAUGUGUGU- -5'
miRNA: 3'- -UGuaGGC-GUAUCUCCCGUAUgUgUGU- -5'
miRNA: 3'- -UGUAGGCgU---AUCUCCCGua-UGUGUGu -5'
miRNA: 3'- -UGUAGGCGua---UCUCCCGUAUGUGugu -5'
miRNA: 3'- -UGUAGGCGUAUCUCCCGUAUGUGUGU- -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
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| Predicted miRNA align pattern | |||||||
| 29074 | 3' | -51.6 | NC_006146.1 | + | 18382 | 0.69 | 0.939176 |
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Target: 5'- cACAUCaug--GGAGGGCuaGUACACACGc -3' miRNA: 3'- -UGUAGgcguaUCUCCCG--UAUGUGUGU- -5' |
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| 29074 | 3' | -51.6 | NC_006146.1 | + | 83364 | 0.73 | 0.792773 |
|
Target: 5'- aAUggCCGuCAUGGAGGGCAUGgAgGCAu -3' miRNA: 3'- -UGuaGGC-GUAUCUCCCGUAUgUgUGU- -5' |
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| 29074 | 3' | -51.6 | NC_006146.1 | + | 48206 | 0.75 | 0.682287 |
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Target: 5'- gGCAUCCGgGgacUGGAGGGCcugGCGCGCc -3' miRNA: 3'- -UGUAGGCgU---AUCUCCCGua-UGUGUGu -5' |
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| 29074 | 3' | -51.6 | NC_006146.1 | + | 8248 | 0.77 | 0.566253 |
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Target: 5'- aGCAUCUGCcuacgAGGGGGCAUGCACc-- -3' miRNA: 3'- -UGUAGGCGua---UCUCCCGUAUGUGugu -5' |
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| 29074 | 3' | -51.6 | NC_006146.1 | + | 105730 | 1.08 | 0.008063 |
|
Target: 5'- cACAUCCGCAUAGAGGGCAUACACACAc -3' miRNA: 3'- -UGUAGGCGUAUCUCCCGUAUGUGUGU- -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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