miRNA: 3'- cugUAgUGCAAUUUGAGCGGCGucaa -5'
miRNA: 3'- cUGUAGUGCAAUUugA-GCg---GCGUCaa -5'
miRNA: 3'- cuGUAGUG-------------CAAuUUGAGCGGCGUCAa -5'
miRNA: 3'- -CUGUAGugCAAUU--UGAgCGGCGuCAA- -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 | |||||||
| 7576 | 3' | -49.4 | NC_001962.1 | + | 74753 | 0.68 | 0.975966 |
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Target: 5'- --aAUgGCGUUAAACUUGCCGCc--- -3' miRNA: 3'- cugUAgUGCAAUUUGAGCGGCGucaa -5' |
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| 7576 | 3' | -49.4 | NC_001962.1 | + | 95749 | 0.68 | 0.97318 |
|
Target: 5'- aGCGUCACGUUAAugUaCGacaaCGCAGc- -3' miRNA: 3'- cUGUAGUGCAAUUugA-GCg---GCGUCaa -5' |
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| 7576 | 3' | -49.4 | NC_001962.1 | + | 121397 | 0.71 | 0.900284 |
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Target: 5'- -uUAUCACagucgccagauuuGUUuGACUCGCCGCAGUc -3' miRNA: 3'- cuGUAGUG-------------CAAuUUGAGCGGCGUCAa -5' |
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| 7576 | 3' | -49.4 | NC_001962.1 | + | 52949 | 0.76 | 0.69848 |
|
Target: 5'- cGACGUUugGUUGAacGCUgGCCGCuGUUg -3' miRNA: 3'- -CUGUAGugCAAUU--UGAgCGGCGuCAA- -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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