miRNA: 3'- gUAGUGGcGGAGcGUUCAGUCCGCGu -5'
miRNA: 3'- guaGUG-GCGGAGCGu--UCAG----UCCGCGu -5'
miRNA: 3'- guaGUGGCGGAG-------------CGUUCagUCCGCGu -5'
miRNA: 3'- guAGUGGCGG----AGCGUUcagUCCGCGU- -5'
miRNA: 3'- -GUAGUGGCGGAGCGUUCAGUCCGcGU- -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 | |||||||
| 466 | 5' | -57.2 | AC_000013.1 | + | 1293 | 0.66 | 0.526341 |
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Target: 5'- gAUCGCU-CUUC-CAAGUCGGGCGUc -3' miRNA: 3'- gUAGUGGcGGAGcGUUCAGUCCGCGu -5' |
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| 466 | 5' | -57.2 | AC_000013.1 | + | 29572 | 0.66 | 0.515676 |
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Target: 5'- --aCACgUGCCUCGCcgcAGUCggcgAGGCGCc -3' miRNA: 3'- guaGUG-GCGGAGCGu--UCAG----UCCGCGu -5' |
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| 466 | 5' | -57.2 | AC_000013.1 | + | 9037 | 0.66 | 0.514614 |
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Target: 5'- --aCGCUGCCUCccauuugcuccagGCGAGggGGGCGCc -3' miRNA: 3'- guaGUGGCGGAG-------------CGUUCagUCCGCGu -5' |
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| 466 | 5' | -57.2 | AC_000013.1 | + | 5248 | 0.7 | 0.295866 |
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Target: 5'- -cUCGCCGCCcccgUCGCAGaagAGGCGCAc -3' miRNA: 3'- guAGUGGCGG----AGCGUUcagUCCGCGU- -5' |
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| 466 | 5' | -57.2 | AC_000013.1 | + | 12153 | 0.97 | 0.003527 |
|
Target: 5'- cCAUCACCGCCUCGCAAGUCAGGC-CAu -3' miRNA: 3'- -GUAGUGGCGGAGCGUUCAGUCCGcGU- -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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