miRNA: 3'- aAGCAGCUGuaGCGCG--------AGCuCGUCAa -5'
miRNA: 3'- aAGC---AGCUGuaGCGCGAGCU-CGUCAa -5'
miRNA: 3'- aAGCa---GCUGUAGCGCGAGCUcGUCaa -5'
miRNA: 3'- aAGCaGCUGUAG-------CGCGAGCUCGUCAa -5'
miRNA: 3'- -AAGCAGCUGUAGCGCGAGCUCGUCAA- -5'
Results 21 - 25 of 25 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 | |||||||
| 24280 | 5' | -55.3 | NC_005263.2 | + | 28272 | 0.7 | 0.401382 |
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Target: 5'- aUCGUCGAUcgCGCGCgacucaccUUGuGCAGUa -3' miRNA: 3'- aAGCAGCUGuaGCGCG--------AGCuCGUCAa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 6609 | 0.72 | 0.314376 |
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Target: 5'- aUCGcguUCGGCggCGCGCUCGGcGCGGUc -3' miRNA: 3'- aAGC---AGCUGuaGCGCGAGCU-CGUCAa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 38449 | 0.72 | 0.298783 |
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Target: 5'- cUCGgcggCGACAUUGCGCUCGA-CAGc- -3' miRNA: 3'- aAGCa---GCUGUAGCGCGAGCUcGUCaa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 19465 | 0.77 | 0.151412 |
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Target: 5'- cUCG-CGGCGUUccgcacgGCGCUCGAGCAGUa -3' miRNA: 3'- aAGCaGCUGUAG-------CGCGAGCUCGUCAa -5' |
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| 24280 | 5' | -55.3 | NC_005263.2 | + | 19608 | 1.02 | 0.002099 |
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Target: 5'- cUUCGUCGACAUCGCGCUCGAGCAGUUc -3' miRNA: 3'- -AAGCAGCUGUAGCGCGAGCUCGUCAA- -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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