miRNA: 3'- gUCACCGUUGUcUACGaCGuUGCaac -5'
miRNA: 3'- gUCaCCGUUGUCUACG---ACGUUGcaac -5'
miRNA: 3'- gUCACC-GUUGU----------CUa-CGAC-GUUGCAAC- -5'
miRNA: 3'- -GUCACCG------UUGUCUACGACG---UUGCaac -5'
miRNA: 3'- -GUCACCGUUGUCUACGACGUUGCAAC- -5'
Results 1 - 5 of 5 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 | |||||||
| 9824 | 3' | -50.4 | NC_002615.1 | + | 3030 | 0.67 | 0.315136 |
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Target: 5'- gAGUGGCAGCAaAUGC-GCcGCGa-- -3' miRNA: 3'- gUCACCGUUGUcUACGaCGuUGCaac -5' |
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| 9824 | 3' | -50.4 | NC_002615.1 | + | 2927 | 0.67 | 0.305743 |
|
Target: 5'- uGGcGGCGAUAGGUGCaguUGCAACu--- -3' miRNA: 3'- gUCaCCGUUGUCUACG---ACGUUGcaac -5' |
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| 9824 | 3' | -50.4 | NC_002615.1 | + | 5366 | 0.67 | 0.296566 |
|
Target: 5'- uGGUGGcCAGCAcugacguuguGAcgGCUGaCAACGUUGc -3' miRNA: 3'- gUCACC-GUUGU----------CUa-CGAC-GUUGCAAC- -5' |
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| 9824 | 3' | -50.4 | NC_002615.1 | + | 5352 | 0.71 | 0.150358 |
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Target: 5'- gUAGUGGUcccaggAACAGAUGCUGUgguAGCGg-- -3' miRNA: 3'- -GUCACCG------UUGUCUACGACG---UUGCaac -5' |
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| 9824 | 3' | -50.4 | NC_002615.1 | + | 5430 | 1.08 | 0.000172 |
|
Target: 5'- gCAGUGGCAACAGAUGCUGCAACGUUGu -3' miRNA: 3'- -GUCACCGUUGUCUACGACGUUGCAAC- -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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