miRNA: 3'- aagaCguCGUCUGCCCgaCGCUCCUa -5'
miRNA: 3'- aaGACG----------UCGUCU--GCCCGACGCuCCua -5'
miRNA: 3'- aaGACGUCG----------UC-UGCCCGACG-------CUCCUA- -5'
miRNA: 3'- -AAGACGUCGUCUGCCCGACGCUCCUA- -5'
Results 1 - 4 of 4 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 | |||||||
| 18721 | 5' | -59.5 | NC_004682.1 | + | 50738 | 0.66 | 0.40448 |
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Target: 5'- ---gGguGCAGACGGG--GUGAGGAg -3' miRNA: 3'- aagaCguCGUCUGCCCgaCGCUCCUa -5' |
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| 18721 | 5' | -59.5 | NC_004682.1 | + | 24327 | 0.66 | 0.395239 |
|
Target: 5'- -cCUGCucgacuuccgGGCAGAgcUGGGCUGCGuGGu- -3' miRNA: 3'- aaGACG----------UCGUCU--GCCCGACGCuCCua -5' |
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| 18721 | 5' | -59.5 | NC_004682.1 | + | 20950 | 0.66 | 0.367473 |
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Target: 5'- -aCUGCAGCuccgggcgcaGGaACGGGUUGCaccagacGAGGAUg -3' miRNA: 3'- aaGACGUCG----------UC-UGCCCGACG-------CUCCUA- -5' |
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| 18721 | 5' | -59.5 | NC_004682.1 | + | 31246 | 1.02 | 0.000723 |
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Target: 5'- cUUCUGCAGCAGACGGGCUGCGAGGAUc -3' miRNA: 3'- -AAGACGUCGUCUGCCCGACGCUCCUA- -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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