miRNA: 3'- uCCC--------------UGCC-UCGGUGGUAUaaGCUC-CU- -5'
miRNA: 3'- -UCCC---UGCCUCGG--------UGGuauAAGCU-CCU- -5'
miRNA: 3'- -UCCCUGCCUCGGUGGUAUAAGCUCCU- -5'
Results 1 - 3 of 3 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 | |||||||
| 30608 | 3' | -55.1 | NC_006549.1 | + | 53447 | 0.66 | 0.930255 |
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Target: 5'- cGGGcggccgaagagauuGCGGaAGCCGCCAUG--CGAGuGAu -3' miRNA: 3'- uCCC--------------UGCC-UCGGUGGUAUaaGCUC-CU- -5' |
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| 30608 | 3' | -55.1 | NC_006549.1 | + | 120465 | 0.66 | 0.909263 |
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Target: 5'- uAGGGuuaGCGGAGCCcucccacgGCCuu-UUCGAcGGGa -3' miRNA: 3'- -UCCC---UGCCUCGG--------UGGuauAAGCU-CCU- -5' |
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| 30608 | 3' | -55.1 | NC_006549.1 | + | 79540 | 1.09 | 0.003421 |
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Target: 5'- cAGGGACGGAGCCACCAUAUUCGAGGAc -3' miRNA: 3'- -UCCCUGCCUCGGUGGUAUAAGCUCCU- -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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