miRNA: 3'- gUugGGUCAUG--GGCC-----CGUCCCGUUcc -5'
miRNA: 3'- -GUUGGG--UCA--UGGg---CCCGUCc--CGUUCC- -5'
miRNA: 3'- guuGGGU----CAUGGGCCCguC-CCgUUCC- -5'
miRNA: 3'- guuGGGU----CAUGGGCCCguC-CCgUUCC- -5'
miRNA: 3'- -GUUGGgUCaUGGGc---CCGUCCCG----UUCC- -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 | |||||||
| 10425 | 3' | -58.5 | NC_002687.1 | + | 87435 | 0.67 | 0.924539 |
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Target: 5'- gAugCCGGUGCaaCCGGugcaaGCGGGGCAGu- -3' miRNA: 3'- gUugGGUCAUG--GGCC-----CGUCCCGUUcc -5' |
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| 10425 | 3' | -58.5 | NC_002687.1 | + | 27794 | 0.66 | 0.934257 |
|
Target: 5'- aCAACCCaaAGUcgGCCaagaGGGUAGcuaGCAGGGg -3' miRNA: 3'- -GUUGGG--UCA--UGGg---CCCGUCc--CGUUCC- -5' |
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| 10425 | 3' | -58.5 | NC_002687.1 | + | 220392 | 0.66 | 0.934257 |
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Target: 5'- --uUCCAagauGUGCCCGGGguGuGGaGAGGa -3' miRNA: 3'- guuGGGU----CAUGGGCCCguC-CCgUUCC- -5' |
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| 10425 | 3' | -58.5 | NC_002687.1 | + | 194801 | 0.66 | 0.934257 |
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Target: 5'- --uUCCAagauGUGCCCGGGguGuGGaGAGGa -3' miRNA: 3'- guuGGGU----CAUGGGCCCguC-CCgUUCC- -5' |
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| 10425 | 3' | -58.5 | NC_002687.1 | + | 22406 | 0.66 | 0.947278 |
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Target: 5'- uCAGCCgGGaACCCuggaGGUAGGGUuacaAAGGg -3' miRNA: 3'- -GUUGGgUCaUGGGc---CCGUCCCG----UUCC- -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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