miRNA: 3'- -GCC-CCUACAgAACA---CUCGUGa---AAgGG- -5'
miRNA: 3'- -GCCC-Cua-----------CAGA-ACACUCGUGaa---AGGG- -5'
miRNA: 3'- -GCCCCua----CAGaa-CACUCGUGAaa-GGg -5'
miRNA: 3'- -GCccCUACAGAACaCUCGUGAaAGGG- -5'
miRNA: 3'- -GCCCCUACAGAACACUCGUGAAAGGG- -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 | |||||||
| 13266 | 3' | -51.6 | NC_003401.1 | + | 45527 | 0.67 | 0.969787 |
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Target: 5'- gCGGaGGGUGUgUUGUaagGGGCGCguugUUgCCg -3' miRNA: 3'- -GCC-CCUACAgAACA---CUCGUGa---AAgGG- -5' |
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| 13266 | 3' | -51.6 | NC_003401.1 | + | 123475 | 0.68 | 0.964629 |
|
Target: 5'- aCGGGuGuuuuuuuguauagGUCUaUGUGAGCGCgcgugUCCCc -3' miRNA: 3'- -GCCC-Cua-----------CAGA-ACACUCGUGaa---AGGG- -5' |
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| 13266 | 3' | -51.6 | NC_003401.1 | + | 120395 | 0.71 | 0.867962 |
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Target: 5'- aCGGGGucaaugGUCccgGUGGGCACUgggCCa -3' miRNA: 3'- -GCCCCua----CAGaa-CACUCGUGAaa-GGg -5' |
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| 13266 | 3' | -51.6 | NC_003401.1 | + | 118746 | 0.73 | 0.780852 |
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Target: 5'- cCGucGAUGUCUUGcGGGCACUcUCCUg -3' miRNA: 3'- -GCccCUACAGAACaCUCGUGAaAGGG- -5' |
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| 13266 | 3' | -51.6 | NC_003401.1 | + | 118546 | 1.12 | 0.004377 |
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Target: 5'- cCGGGGAUGUCUUGUGAGCACUUUCCCc -3' miRNA: 3'- -GCCCCUACAGAACACUCGUGAAAGGG- -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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