miRNA: 3'- aaCGCCGG--------------GAGAa----CUa---CCUUUUCUGG- -5'
miRNA: 3'- -AACGCCGGgagaacUACCUUUUCUGG- -5'
miRNA: 3'- aaCGCCGGGAGaac---UACCUu---UUCUGG- -5'
Results 41 - 43 of 43 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 27162 | 5' | -51.7 | NC_005832.1 | + | 96502 | 0.67 | 0.936842 |
|
Target: 5'- -gGCGGCCgacagggcgcugagCUCUccucgGAgugcGGAAAGGGCCu -3' miRNA: 3'- aaCGCCGG--------------GAGAa----CUa---CCUUUUCUGG- -5' |
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| 27162 | 5' | -51.7 | NC_005832.1 | + | 100753 | 0.69 | 0.881491 |
|
Target: 5'- uUUGCGGCU------AUGGGAGAGGCCg -3' miRNA: 3'- -AACGCCGGgagaacUACCUUUUCUGG- -5' |
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| 27162 | 5' | -51.7 | NC_005832.1 | + | 102880 | 0.67 | 0.943354 |
|
Target: 5'- -gGCGGCCCUCaucuacAUGGGcuacAGGACUu -3' miRNA: 3'- aaCGCCGGGAGaac---UACCUu---UUCUGG- -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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