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miRNA: 3'- aaaaaCgGCCGUCCa---UGCUGCUGCGc -5'
miRNA: 3'- aaaaaCGGC-CGUCCA-UGCU-GCUGCGC- -5'
miRNA: 3'- aaaaaCGGCcGUCCaUGCUGCUGCGC- -5'
miRNA: 3'- -AAAAACGGCCGUCCAUGCUGCUGCGC- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 22973 | 5' | -54.1 | NC_005137.2 | + | 112459 | 0.75 | 0.490553 |
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Target: 5'- ----cGgCGGCAGGauggGCGACGGCGCc -3' miRNA: 3'- aaaaaCgGCCGUCCa---UGCUGCUGCGc -5' |
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| 22973 | 5' | -54.1 | NC_005137.2 | + | 96559 | 0.76 | 0.45204 |
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Target: 5'- ----cGCCGcGCGGGUaGCGGuCGGCGCGg -3' miRNA: 3'- aaaaaCGGC-CGUCCA-UGCU-GCUGCGC- -5' |
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| 22973 | 5' | -54.1 | NC_005137.2 | + | 42194 | 0.76 | 0.433413 |
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Target: 5'- ----cGCCGaCAGGgACGGCGACGCGc -3' miRNA: 3'- aaaaaCGGCcGUCCaUGCUGCUGCGC- -5' |
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| 22973 | 5' | -54.1 | NC_005137.2 | + | 130930 | 1.06 | 0.005844 |
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Target: 5'- cUUUUUGCCGGCAGGUACGACGACGCGc -3' miRNA: 3'- -AAAAACGGCCGUCCAUGCUGCUGCGC- -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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