miRNA: 3'- -CAACUU----------UGCGUaGGAG-UUCGGUGUGU- -5'
miRNA: 3'- caaCUUUGCGU--------------AGGAGU-----------UCGGUGUGu -5'
miRNA: 3'- -CAACU---UUGCGUa--GGAgUUCGG---UGUGU- -5'
miRNA: 3'- -CAACUUUGCGUAGGAGUUCGGUGUGU- -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 | |||||||
| 31788 | 3' | -49.2 | NC_006938.1 | + | 59677 | 0.7 | 0.808167 |
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Target: 5'- cGUUGAAggugcuugccGCGCG-CUUCuGAGCCGCGCGu -3' miRNA: 3'- -CAACUU----------UGCGUaGGAG-UUCGGUGUGU- -5' |
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| 31788 | 3' | -49.2 | NC_006938.1 | + | 27072 | 0.71 | 0.795094 |
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Target: 5'- --cGAGGCGCAcccacgcgguguguUCCUCGugucggucccaGGCCACGCc -3' miRNA: 3'- caaCUUUGCGU--------------AGGAGU-----------UCGGUGUGu -5' |
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| 31788 | 3' | -49.2 | NC_006938.1 | + | 7206 | 0.72 | 0.734424 |
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Target: 5'- cGUUGAccaGGCGCAgggCCUgGAGCUccgGCGCAa -3' miRNA: 3'- -CAACU---UUGCGUa--GGAgUUCGG---UGUGU- -5' |
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| 31788 | 3' | -49.2 | NC_006938.1 | + | 4021 | 1.1 | 0.003769 |
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Target: 5'- aGUUGAAACGCAUCCUCAAGCCACACAg -3' miRNA: 3'- -CAACUUUGCGUAGGAGUUCGGUGUGU- -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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