miRNA: 3'- -CCUAGCaG-UCCUAGCGCAuccGCUGG- -5'
miRNA: 3'- cCUAGCaGUCCU-AGCGca-UCCG-----CUGG- -5'
miRNA: 3'- -CCUAGCa---GUCCUa------GCgCAU---------------CCGCUGG- -5'
miRNA: 3'- cCUAGCAGUC----CUA-------------GCGCaUCCGCUGg -5'
Results 21 - 24 of 24 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 | |||||||
| 18580 | 5' | -53.8 | NC_004682.1 | + | 42415 | 0.66 | 0.825409 |
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Target: 5'- cGGGUUGcCgGGGGUCGCGU---UGACCu -3' miRNA: 3'- -CCUAGCaG-UCCUAGCGCAuccGCUGG- -5' |
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| 18580 | 5' | -53.8 | NC_004682.1 | + | 18225 | 0.66 | 0.825409 |
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Target: 5'- uGAUCG-CAGGGuUCGCccgAGGCaucgaGGCCg -3' miRNA: 3'- cCUAGCaGUCCU-AGCGca-UCCG-----CUGG- -5' |
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| 18580 | 5' | -53.8 | NC_004682.1 | + | 40161 | 0.66 | 0.829032 |
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Target: 5'- aGGAUCGccgcCAGGAcacgcucCGgGUAgcgaggugcgaucucGGCGACCa -3' miRNA: 3'- -CCUAGCa---GUCCUa------GCgCAU---------------CCGCUGG- -5' |
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| 18580 | 5' | -53.8 | NC_004682.1 | + | 36833 | 0.65 | 0.833515 |
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Target: 5'- aGGUCGUCAGccucGAUgaccccaggccacUGCG-AGGCGACg -3' miRNA: 3'- cCUAGCAGUC----CUA-------------GCGCaUCCGCUGg -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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