miRNA: 3'- aGGGUGaaaCGGGGaUGAG-GCCaaGG- -5'
miRNA: 3'- aGGGUGaaaCGGGGAUGa-GGCCaagg -5'
miRNA: 3'- -AGGGUGAaaCGGGGaUGAGGCCAAGG- -5'
miRNA: 3'- aGGGUGa----AACGGGGA--UGA-GGCCaaGG- -5'
miRNA: 3'- -AGGGUGAAACGGGGAUGAGGCCAAGG- -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 | |||||||
| 24716 | 3' | -54.9 | NC_005264.1 | + | 144778 | 0.71 | 0.758992 |
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Target: 5'- gCCCGCgc-GCCCUgGCUCgCGGcgCCg -3' miRNA: 3'- aGGGUGaaaCGGGGaUGAG-GCCaaGG- -5' |
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| 24716 | 3' | -54.9 | NC_005264.1 | + | 91847 | 0.71 | 0.729949 |
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Target: 5'- gCCCACgcaGCCCCUGCgaCCGGg--- -3' miRNA: 3'- aGGGUGaaaCGGGGAUGa-GGCCaagg -5' |
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| 24716 | 3' | -54.9 | NC_005264.1 | + | 63768 | 0.72 | 0.669833 |
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Target: 5'- uUCUCGCUcgGCCUUgGCUCUGGUUUCc -3' miRNA: 3'- -AGGGUGAaaCGGGGaUGAGGCCAAGG- -5' |
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| 24716 | 3' | -54.9 | NC_005264.1 | + | 2176 | 0.73 | 0.649455 |
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Target: 5'- cCCCGCggccgUUGCCCCUccAUUgCCGGcgCCc -3' miRNA: 3'- aGGGUGa----AACGGGGA--UGA-GGCCaaGG- -5' |
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| 24716 | 3' | -54.9 | NC_005264.1 | + | 133009 | 1.13 | 0.002258 |
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Target: 5'- cUCCCACUUUGCCCCUACUCCGGUUCCa -3' miRNA: 3'- -AGGGUGAAACGGGGAUGAGGCCAAGG- -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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