miRNA: 3'- cGGUUGUUUGC-CCCuuaGuACGAGCA- -5'
miRNA: 3'- cGGUUGU-UUGCCC-CUuaGUACGAGCa -5'
miRNA: 3'- -CGGUUGUUUGCCCcu-UAGUACGAgCa -5'
miRNA: 3'- cGgUUGUUUGCCCCU---UAGUACGaGCa -5'
miRNA: 3'- -CGGUUGUUUGCCCCUUAGUACGAGCA- -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 | |||||||
| 22885 | 5' | -50 | NC_005137.2 | + | 87188 | 0.66 | 0.994174 |
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Target: 5'- uUCGACGGGCGcGGGcggC-UGCUCGUg -3' miRNA: 3'- cGGUUGUUUGC-CCCuuaGuACGAGCA- -5' |
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| 22885 | 5' | -50 | NC_005137.2 | + | 56591 | 0.7 | 0.932817 |
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Target: 5'- cCCGACGcGACGGGcGA--CGUGCUCGa -3' miRNA: 3'- cGGUUGU-UUGCCC-CUuaGUACGAGCa -5' |
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| 22885 | 5' | -50 | NC_005137.2 | + | 69637 | 0.71 | 0.90943 |
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Target: 5'- uGCCGAUAGACGGGuucAUUGUGCUgGa -3' miRNA: 3'- -CGGUUGUUUGCCCcu-UAGUACGAgCa -5' |
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| 22885 | 5' | -50 | NC_005137.2 | + | 46489 | 0.75 | 0.747461 |
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Target: 5'- uUgAACGAACGGGGAcccGUCAUGC-CGg -3' miRNA: 3'- cGgUUGUUUGCCCCU---UAGUACGaGCa -5' |
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| 22885 | 5' | -50 | NC_005137.2 | + | 66366 | 1.1 | 0.007886 |
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Target: 5'- cGCCAACAAACGGGGAAUCAUGCUCGUc -3' miRNA: 3'- -CGGUUGUUUGCCCCUUAGUACGAGCA- -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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