miRNA: 3'- -CCGCUCGGUACUGGUUAAGCAGGUAG- -5'
miRNA: 3'- -CCG---CUCG--GUa--CUGGUUAaGCAGGUAG- -5'
miRNA: 3'- -CCGCuCGGUAcUGGUUa--AGCA-GGUag -5'
miRNA: 3'- cCGCUCGGUAcuGGUUaAGCA--------GGUAG- -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 | |||||||
| 26537 | 3' | -51.5 | NC_005357.1 | + | 1693 | 1.14 | 0.000834 |
|
Target: 5'- cGGCGAGCCAUGACCAAUUCGUCCAUCg -3' miRNA: 3'- -CCGCUCGGUACUGGUUAAGCAGGUAG- -5' |
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| 26537 | 3' | -51.5 | NC_005357.1 | + | 922 | 0.66 | 0.859928 |
|
Target: 5'- cGGCauuGAGUguCAgggGGCCGAUcUGUCCGUCc -3' miRNA: 3'- -CCG---CUCG--GUa--CUGGUUAaGCAGGUAG- -5' |
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| 26537 | 3' | -51.5 | NC_005357.1 | + | 323 | 0.66 | 0.813767 |
|
Target: 5'- gGGCGuGCCGU-ACCGGgggUCGUgCCAc- -3' miRNA: 3'- -CCGCuCGGUAcUGGUUa--AGCA-GGUag -5' |
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| 26537 | 3' | -51.5 | NC_005357.1 | + | 91 | 0.69 | 0.66185 |
|
Target: 5'- aGCGAGCCAUuuCCAGaUCGUucugcgcgCCGUCc -3' miRNA: 3'- cCGCUCGGUAcuGGUUaAGCA--------GGUAG- -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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