miRNA: 3'- -AGUGUGGCUuGUaCCGGG-GaUGUGCU- -5'
miRNA: 3'- aGUGUg-------GCUUGuACCGGGGAUGUGCU- -5'
miRNA: 3'- agUGU-GGCUugUaCCGGGGA-UGU-GCU- -5'
miRNA: 3'- -AGUGUgGCU----UGUACCGGGgaUGUGcu -5'
miRNA: 3'- -AGUGUGGCUUGUACCGGGGAUGUGCU- -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 | |||||||
| 32308 | 5' | -54.2 | NC_007024.1 | + | 6225 | 0.66 | 0.777774 |
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Target: 5'- uUCGCGCUGAcCGaGGCUCgCcACACGAc -3' miRNA: 3'- -AGUGUGGCUuGUaCCGGG-GaUGUGCU- -5' |
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| 32308 | 5' | -54.2 | NC_007024.1 | + | 26308 | 0.66 | 0.757367 |
|
Target: 5'- gCGCAguuagcuaCGGGC-UGGCCCCUACGUGGc -3' miRNA: 3'- aGUGUg-------GCUUGuACCGGGGAUGUGCU- -5' |
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| 32308 | 5' | -54.2 | NC_007024.1 | + | 33636 | 0.68 | 0.682475 |
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Target: 5'- -aGCAgCCGAugAaGGCCCCUgGCGcCGAc -3' miRNA: 3'- agUGU-GGCUugUaCCGGGGA-UGU-GCU- -5' |
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| 32308 | 5' | -54.2 | NC_007024.1 | + | 32510 | 0.69 | 0.605166 |
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Target: 5'- aUCACGgCGAucugACGUGGCCCgaGCAUu- -3' miRNA: 3'- -AGUGUgGCU----UGUACCGGGgaUGUGcu -5' |
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| 32308 | 5' | -54.2 | NC_007024.1 | + | 14650 | 1.09 | 0.001238 |
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Target: 5'- gUCACACCGAACAUGGCCCCUACACGAu -3' miRNA: 3'- -AGUGUGGCUUGUACCGGGGAUGUGCU- -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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