miRNA: 3'- -UUUGAa-GCUUCGgU----ACG-GugCAUAGU- -5'
miRNA: 3'- uuuGAAGCU-UCG---GUACGGUGC--AUAGU- -5'
miRNA: 3'- uUUGAA-GCUUCGg---UACGGUGCAUAGU- -5'
miRNA: 3'- -UUUGAAGCUUCGGUACGGUGCAUAGU- -5'
Results 1 - 4 of 4 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 | |||||||
| 22527 | 5' | -49 | NC_005083.1 | + | 168491 | 0.66 | 0.99978 |
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Target: 5'- aAAGCUggCGAAGCgGguacUGCaCugGUAUCGg -3' miRNA: 3'- -UUUGAa-GCUUCGgU----ACG-GugCAUAGU- -5' |
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| 22527 | 5' | -49 | NC_005083.1 | + | 96219 | 0.66 | 0.99972 |
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Target: 5'- --gUUUCGAuAGCguuCAUGCCACGagUAUCAg -3' miRNA: 3'- uuuGAAGCU-UCG---GUACGGUGC--AUAGU- -5' |
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| 22527 | 5' | -49 | NC_005083.1 | + | 8599 | 0.68 | 0.997833 |
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Target: 5'- uAGCUUaCGAAGCguugAUGUUGCGUAUCAa -3' miRNA: 3'- uUUGAA-GCUUCGg---UACGGUGCAUAGU- -5' |
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| 22527 | 5' | -49 | NC_005083.1 | + | 73088 | 1.07 | 0.022717 |
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Target: 5'- gAAACUUCGAAGCCAUGCCACGUAUCAa -3' miRNA: 3'- -UUUGAAGCUUCGGUACGGUGCAUAGU- -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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