miRNA: 3'- -CGUAGGUGuGUUGGUCuGGuAGUgCC- -5'
miRNA: 3'- -CGua--GGUGuGUUGGUCUGGuAGugCC- -5'
miRNA: 3'- -CGuaGGUG---UGUUGGUCUGG-----UAGU-GCC- -5'
miRNA: 3'- -CGUAGGU-GUGUUGGUC-------------UGGUa--GUGcc -5'
miRNA: 3'- -CGUAGGUGUguUGGucuGGU--AGUGCC- -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 | |||||||
| 18002 | 3' | -50.9 | NC_004665.1 | + | 26218 | 0.7 | 0.648671 |
|
Target: 5'- aGCAUCCGC-CAGCCGG-UC-UCAgGGu -3' miRNA: 3'- -CGUAGGUGuGUUGGUCuGGuAGUgCC- -5' |
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| 18002 | 3' | -50.9 | NC_004665.1 | + | 27555 | 0.68 | 0.771965 |
|
Target: 5'- cGCcaagUCGC-CAACCGGGCC-UCugGGu -3' miRNA: 3'- -CGua--GGUGuGUUGGUCUGGuAGugCC- -5' |
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| 18002 | 3' | -50.9 | NC_004665.1 | + | 32772 | 0.68 | 0.728436 |
|
Target: 5'- gGCcgCCACcauGCAAUCGGGCCugacaGUCAaCGGu -3' miRNA: 3'- -CGuaGGUG---UGUUGGUCUGG-----UAGU-GCC- -5' |
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| 18002 | 3' | -50.9 | NC_004665.1 | + | 33278 | 0.66 | 0.840611 |
|
Target: 5'- uGCAUCCAcCACAACUGGuugucaguguucaGCCAgagCGCa- -3' miRNA: 3'- -CGUAGGU-GUGUUGGUC-------------UGGUa--GUGcc -5' |
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| 18002 | 3' | -50.9 | NC_004665.1 | + | 35495 | 0.66 | 0.859388 |
|
Target: 5'- cGUAUCCACG--GCCuu-CCAgcUCGCGGu -3' miRNA: 3'- -CGUAGGUGUguUGGucuGGU--AGUGCC- -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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