miRNA: 3'- cAUGCgCCGUg-CCCUUCGCUa--------GCUCa -5'
miRNA: 3'- caUGCGCCGUGCc-CUUCGCUAGCuca -5'
miRNA: 3'- -CAUGCGCCGUGCCCUUCgCUagCUCa -5'
miRNA: 3'- -CAUGCGCCGUGCCCUUCGCUAGCUCA- -5'
Results 1 - 4 of 4 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 | |||||||
| 490 | 5' | -56.4 | AC_000013.1 | + | 15966 | 0.68 | 0.495562 |
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Target: 5'- uUACGgGGCGagGGGGAGCGGgauuuuuugCGAGc -3' miRNA: 3'- cAUGCgCCGUg-CCCUUCGCUa--------GCUCa -5' |
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| 490 | 5' | -56.4 | AC_000013.1 | + | 10065 | 0.71 | 0.312467 |
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Target: 5'- -cGCGCGGCAUGaaGAAGCGGUCGc-- -3' miRNA: 3'- caUGCGCCGUGCc-CUUCGCUAGCuca -5' |
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| 490 | 5' | -56.4 | AC_000013.1 | + | 11191 | 0.84 | 0.04447 |
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Target: 5'- aGUACGCGGCACGGGAAGaGGagGAGg -3' miRNA: 3'- -CAUGCGCCGUGCCCUUCgCUagCUCa -5' |
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| 490 | 5' | -56.4 | AC_000013.1 | + | 28303 | 1.06 | 0.000962 |
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Target: 5'- uGUACGCGGCACGGGAAGCGAUCGAGUc -3' miRNA: 3'- -CAUGCGCCGUGCCCUUCGCUAGCUCA- -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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