miRNA: 3'- -CCUCCGCUGCCGGGau-UG----UGGCcUUU- -5'
miRNA: 3'- -CCUCCGCUGcCGG-GAu--------UGUGGCCUUU- -5'
miRNA: 3'- -CCuCCGCUGCCGGG--AUUG-UGGCCuuu -5'
miRNA: 3'- -CCUCCGCUGCCGGGAUUGUGGCCUUU- -5'
Results 21 - 24 of 24 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 | |||||||
| 18213 | 5' | -57.2 | NC_004680.1 | + | 40093 | 0.73 | 0.266869 |
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Target: 5'- uGGGGGUGACGGCCCgcuGCgucaGCCGuAGAu -3' miRNA: 3'- -CCUCCGCUGCCGGGau-UG----UGGCcUUU- -5' |
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| 18213 | 5' | -57.2 | NC_004680.1 | + | 12320 | 0.74 | 0.223191 |
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Target: 5'- cGGGGGCGACcGCCgCUucgggugccGCGCCGGGGAg -3' miRNA: 3'- -CCUCCGCUGcCGG-GAu--------UGUGGCCUUU- -5' |
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| 18213 | 5' | -57.2 | NC_004680.1 | + | 12453 | 0.76 | 0.162492 |
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Target: 5'- uGGuGGCGGCGGCCCgaUGGCuGCCGGu-- -3' miRNA: 3'- -CCuCCGCUGCCGGG--AUUG-UGGCCuuu -5' |
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| 18213 | 5' | -57.2 | NC_004680.1 | + | 40039 | 1.08 | 0.000855 |
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Target: 5'- aGGAGGCGACGGCCCUAACACCGGAAAc -3' miRNA: 3'- -CCUCCGCUGCCGGGAUUGUGGCCUUU- -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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