miRNA: 3'- aCUCa--------CGCCGCUACUg----CaaCCGCUGG- -5'
miRNA: 3'- aCUCACG------------CCGCU------------ACugCAACCGCu--GG- -5'
miRNA: 3'- -ACUCa------CGCCGCU-----ACUGCAaCCgCUGG- -5'
miRNA: 3'- -ACUCACGCCGCUACUGCAACCGCUGG- -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
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| Predicted miRNA align pattern | |||||||
| 18583 | 5' | -55.2 | NC_004682.1 | + | 21612 | 0.71 | 0.39612 |
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Target: 5'- cGAGgcgaucucgGCGGCGGUGAacaugGgaGGCGACUu -3' miRNA: 3'- aCUCa--------CGCCGCUACUg----CaaCCGCUGG- -5' |
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| 18583 | 5' | -55.2 | NC_004682.1 | + | 45229 | 0.72 | 0.352274 |
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Target: 5'- cGAGUGCgcgguuccagcgGGCGAuccgcucuucgaUGugGUUGGCGcguCCg -3' miRNA: 3'- aCUCACG------------CCGCU------------ACugCAACCGCu--GG- -5' |
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| 18583 | 5' | -55.2 | NC_004682.1 | + | 1636 | 0.74 | 0.29687 |
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Target: 5'- gUGAGgcaucugGUGGCGAcccguUGGCGUgGGgGACCg -3' miRNA: 3'- -ACUCa------CGCCGCU-----ACUGCAaCCgCUGG- -5' |
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| 18583 | 5' | -55.2 | NC_004682.1 | + | 25667 | 1.12 | 0.000638 |
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Target: 5'- uUGAGUGCGGCGAUGACGUUGGCGACCu -3' miRNA: 3'- -ACUCACGCCGCUACUGCAACCGCUGG- -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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