miRNA: 3'- -UCCUGCCgauGCUG------CCGgUUCCACUc -5'
miRNA: 3'- -UCCUGCCgAu-------GCug-CCGGUUCCACuc -5'
miRNA: 3'- ucCUGCCGa------UGCUGCCGgUU---CCACUC- -5'
miRNA: 3'- -UCCUGCCGAUgCUGCCGGUUCCACUC- -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 | |||||||
| 22087 | 3' | -57.4 | NC_004927.1 | + | 53496 | 0.66 | 0.716773 |
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Target: 5'- gGGGAUGGauuCGACccucguGGCgGGGGUGAa -3' miRNA: 3'- -UCCUGCCgauGCUG------CCGgUUCCACUc -5' |
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| 22087 | 3' | -57.4 | NC_004927.1 | + | 41366 | 0.66 | 0.696027 |
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Target: 5'- uGGGACGGgUuacucaauCGuuaGGCCGAGGUGc- -3' miRNA: 3'- -UCCUGCCgAu-------GCug-CCGGUUCCACuc -5' |
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| 22087 | 3' | -57.4 | NC_004927.1 | + | 65502 | 0.67 | 0.643327 |
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Target: 5'- -cGGCGGCaacgaaaGCGACGGCgGGaguGGUGGGa -3' miRNA: 3'- ucCUGCCGa------UGCUGCCGgUU---CCACUC- -5' |
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| 22087 | 3' | -57.4 | NC_004927.1 | + | 63933 | 0.98 | 0.005727 |
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Target: 5'- aAGGACGGCUA-GACGGCCAAGGUGAGg -3' miRNA: 3'- -UCCUGCCGAUgCUGCCGGUUCCACUC- -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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