miRNA: 3'- cUGCCGUGUUGaCG--------------UGCUCCAACuGU- -5'
miRNA: 3'- -CUGCCGUGUugaCGuGCUCCAACUgu -5'
miRNA: 3'- cUGcCGUGuUGACG-UGCUCCAACUGu -5'
miRNA: 3'- -CUGCCGUGUUgA-----CGUGC-UCCaa--CUGU- -5'
miRNA: 3'- -CUGCCGUGuuGAcGUGCUCCaa---CUGU- -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 | |||||||
| 11465 | 5' | -53.1 | NC_003085.1 | + | 35779 | 0.66 | 0.766441 |
|
Target: 5'- cGCGGCGCGACgGCcgguguccuuguccAUGGGGUUG-CGc -3' miRNA: 3'- cUGCCGUGUUGaCG--------------UGCUCCAACuGU- -5' |
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| 11465 | 5' | -53.1 | NC_003085.1 | + | 38392 | 0.66 | 0.790134 |
|
Target: 5'- uGGCGGUGCAg--GC-CGAGGUUGGu- -3' miRNA: 3'- -CUGCCGUGUugaCGuGCUCCAACUgu -5' |
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| 11465 | 5' | -53.1 | NC_003085.1 | + | 44624 | 0.7 | 0.569283 |
|
Target: 5'- cGCcGCACuAUUGCgGCGAGGUUGGCu -3' miRNA: 3'- cUGcCGUGuUGACG-UGCUCCAACUGu -5' |
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| 11465 | 5' | -53.1 | NC_003085.1 | + | 46925 | 0.66 | 0.769579 |
|
Target: 5'- aGGCGGCACAGgUucggcGCGCGcAGGggccGACGc -3' miRNA: 3'- -CUGCCGUGUUgA-----CGUGC-UCCaa--CUGU- -5' |
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| 11465 | 5' | -53.1 | NC_003085.1 | + | 48788 | 0.66 | 0.769579 |
|
Target: 5'- uGGCGGCGCuuCUuCGCGGGGcucacGGCAg -3' miRNA: 3'- -CUGCCGUGuuGAcGUGCUCCaa---CUGU- -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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