miRNA: 3'- aaCC-UGCGUAGGCCC--AAAC-GGA--------------AGGG- -5'
miRNA: 3'- aaCCUGCg-UAGGCCCa--AACGGaa--GGG- -5'
miRNA: 3'- aACCuGCGUaGGCC-CAA----ACGGAAGgG- -5'
miRNA: 3'- aaCCUgCGUAGGCCCaa--ACGGAaGGg -5'
miRNA: 3'- -AACCUGCGUAGGCCCAAACGGAAGGG- -5'
Results 1 - 5 of 5 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 | |||||||
| 17591 | 5' | -55.4 | NC_004466.2 | + | 3290 | 0.66 | 0.606653 |
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Target: 5'- -aGGcACGUAUCCGGGggUUUGuCCUcuuugaucuucaagUCCUa -3' miRNA: 3'- aaCC-UGCGUAGGCCC--AAAC-GGA--------------AGGG- -5' |
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| 17591 | 5' | -55.4 | NC_004466.2 | + | 7413 | 0.67 | 0.554362 |
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Target: 5'- -aGGAUGaaAUCCGGGguaUUGCUgaugCCCg -3' miRNA: 3'- aaCCUGCg-UAGGCCCa--AACGGaa--GGG- -5' |
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| 17591 | 5' | -55.4 | NC_004466.2 | + | 44559 | 0.67 | 0.554362 |
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Target: 5'- cUGG-CGCAcCCGGcGUUacgcUGCCUUCgCu -3' miRNA: 3'- aACCuGCGUaGGCC-CAA----ACGGAAGgG- -5' |
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| 17591 | 5' | -55.4 | NC_004466.2 | + | 27489 | 0.68 | 0.500298 |
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Target: 5'- -gGGAgGCAUCUGGGggacUGCCU-CUa -3' miRNA: 3'- aaCCUgCGUAGGCCCaa--ACGGAaGGg -5' |
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| 17591 | 5' | -55.4 | NC_004466.2 | + | 3323 | 1.09 | 0.000674 |
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Target: 5'- cUUGGACGCAUCCGGGUUUGCCUUCCCu -3' miRNA: 3'- -AACCUGCGUAGGCCCAAACGGAAGGG- -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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