miRNA: 3'- -GGCGCAAUACUGUAGUAGGUCCUUUG- -5'
miRNA: 3'- -GGCGCAauacuGUAGUaGGUCCUUUG- -5'
miRNA: 3'- -GGCGCaaUACU-GUaGUagGUCCUUUG- -5'
miRNA: 3'- ggCGcaaUACUG-UAGUaGGUCCUUUG- -5'
miRNA: 3'- -GgCGCaaUACUGUa---GUAGGUCCuuUG- -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 | |||||||
| 663 | 3' | -47.1 | AC_000018.1 | + | 6971 | 1.14 | 0.002222 |
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Target: 5'- aCCGCGUUAUGACAUCAUCCAGGAAACu -3' miRNA: 3'- -GGCGCAAUACUGUAGUAGGUCCUUUG- -5' |
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| 663 | 3' | -47.1 | AC_000018.1 | + | 25834 | 0.69 | 0.876512 |
|
Target: 5'- cCUGCGU-----CAUCAcCCAGGGAGCa -3' miRNA: 3'- -GGCGCAauacuGUAGUaGGUCCUUUG- -5' |
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| 663 | 3' | -47.1 | AC_000018.1 | + | 12030 | 0.67 | 0.949903 |
|
Target: 5'- aCCGCGcgGUGAgCGcCAg-CAGGAGGCg -3' miRNA: 3'- -GGCGCaaUACU-GUaGUagGUCCUUUG- -5' |
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| 663 | 3' | -47.1 | AC_000018.1 | + | 24084 | 0.66 | 0.973764 |
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Target: 5'- -aGCag-AUGGCgAUCA-CCAGGAGGCu -3' miRNA: 3'- ggCGcaaUACUG-UAGUaGGUCCUUUG- -5' |
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| 663 | 3' | -47.1 | AC_000018.1 | + | 6872 | 0.66 | 0.973764 |
|
Target: 5'- uCgGCG--GUGACGaguaCAUCCAGGgcACa -3' miRNA: 3'- -GgCGCaaUACUGUa---GUAGGUCCuuUG- -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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