miRNA: 3'- -GCAGgcGCUGAaagGCGCGCGGA--GGU- -5'
miRNA: 3'- -GCA--GGCGcUGaaa-GGCGCGCGGaGGU- -5'
miRNA: 3'- gCAGgCGCUGaaa---------GGcGCGCGGAGGU- -5'
miRNA: 3'- -GCAggCGCugAaaGGCGCGCGGAGGu -5'
miRNA: 3'- -GCAGGCGCUGAAAGGCGCGCGGAGGU- -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 | |||||||
| 614 | 3' | -59.1 | AC_000017.1 | + | 10621 | 0.66 | 0.406352 |
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Target: 5'- gCGUCaaCGACUg--CGCGCGCCUgaCCGg -3' miRNA: 3'- -GCAGgcGCUGAaagGCGCGCGGA--GGU- -5' |
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| 614 | 3' | -59.1 | AC_000017.1 | + | 24002 | 0.67 | 0.353279 |
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Target: 5'- cCGUcgCCGCcGCcuccCCGCGCGCCcCCAa -3' miRNA: 3'- -GCA--GGCGcUGaaa-GGCGCGCGGaGGU- -5' |
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| 614 | 3' | -59.1 | AC_000017.1 | + | 16253 | 0.67 | 0.348249 |
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Target: 5'- gGUCgGCGGCgguggcgacgugCUaCGCGCCUCCGc -3' miRNA: 3'- gCAGgCGCUGaaa---------GGcGCGCGGAGGU- -5' |
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| 614 | 3' | -59.1 | AC_000017.1 | + | 16138 | 0.69 | 0.276182 |
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Target: 5'- gCGUggGCGugUagUUGCGCGCCUCCu -3' miRNA: 3'- -GCAggCGCugAaaGGCGCGCGGAGGu -5' |
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| 614 | 3' | -59.1 | AC_000017.1 | + | 10540 | 1.08 | 0.000324 |
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Target: 5'- gCGUCCGCGACUUUCCGCGCGCCUCCAc -3' miRNA: 3'- -GCAGGCGCUGAAAGGCGCGCGGAGGU- -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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