miRNA: 3'- ccCGGCCGCGaaaaaAGU--UGAGGAGc -5'
miRNA: 3'- -CCCggc---CGCGAAAaaAGUUGAGGAGC- -5'
miRNA: 3'- -CCCGGCCgCGAAaaa---AGUUGAGgagc -5'
miRNA: 3'- -CCCGGCCGCGAaaa----AAGU------------UgAGGAgC- -5'
miRNA: 3'- -CCCGGCCGCGAAAAAAGUUGAGGAGC- -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 | |||||||
| 31622 | 5' | -51.7 | NC_006879.1 | + | 13179 | 0.66 | 0.792531 |
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Target: 5'- -cGCCGGCGUgacucUCAccGCUCUUCu -3' miRNA: 3'- ccCGGCCGCGaaaaaAGU--UGAGGAGc -5' |
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| 31622 | 5' | -51.7 | NC_006879.1 | + | 25032 | 0.66 | 0.760788 |
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Target: 5'- uGGGaaagauGCGCUUUc-UCAGCUCUUCGg -3' miRNA: 3'- -CCCggc---CGCGAAAaaAGUUGAGGAGC- -5' |
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| 31622 | 5' | -51.7 | NC_006879.1 | + | 24653 | 0.71 | 0.498972 |
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Target: 5'- gGGGCCGGgGCUUcggcugUCGGCUCa--- -3' miRNA: 3'- -CCCGGCCgCGAAaaa---AGUUGAGgagc -5' |
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| 31622 | 5' | -51.7 | NC_006879.1 | + | 25385 | 0.73 | 0.367524 |
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Target: 5'- gGGGCCGGCGCUgagccagUUCAucuugcuggaguAgUCCUgGg -3' miRNA: 3'- -CCCGGCCGCGAaaa----AAGU------------UgAGGAgC- -5' |
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| 31622 | 5' | -51.7 | NC_006879.1 | + | 7081 | 1.11 | 0.000901 |
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Target: 5'- aGGGCCGGCGCUUUUUUCAACUCCUCGu -3' miRNA: 3'- -CCCGGCCGCGAAAAAAGUUGAGGAGC- -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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