miRNA: 3'- -GGCaUGAGCUUCGGCuGC--UGA-------ACUUG- -5'
miRNA: 3'- -GGCAU-GAGCUUCGGcUGCUGAACUug -5'
miRNA: 3'- -GGCAugAGCUUCGGCUg--CUGaa--CUUG- -5'
miRNA: 3'- gGCAUGAGCUUCGGCUGCUGaacuug -5'
miRNA: 3'- -GGCAUGAGCUUCGGCUGCUGAACUUG- -5'
Results 21 - 25 of 25 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 | |||||||
| 31765 | 3' | -50 | NC_006938.1 | + | 37511 | 0.73 | 0.673239 |
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Target: 5'- cCCGaGCUCGAGGCCGcCGccGCUggcaagcUGGACg -3' miRNA: 3'- -GGCaUGAGCUUCGGCuGC--UGA-------ACUUG- -5' |
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| 31765 | 3' | -50 | NC_006938.1 | + | 53059 | 0.74 | 0.652112 |
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Target: 5'- gCUGUAgCUCGGAGUC-ACGACUUGAc- -3' miRNA: 3'- -GGCAU-GAGCUUCGGcUGCUGAACUug -5' |
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| 31765 | 3' | -50 | NC_006938.1 | + | 11285 | 0.76 | 0.541398 |
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Target: 5'- gCCGUugUUGAAGCCGAacaGACcgccGAGCc -3' miRNA: 3'- -GGCAugAGCUUCGGCUg--CUGaa--CUUG- -5' |
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| 31765 | 3' | -50 | NC_006938.1 | + | 2910 | 0.77 | 0.498667 |
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Target: 5'- uUGUACUCGAAGUCGAUGACa----- -3' miRNA: 3'- gGCAUGAGCUUCGGCUGCUGaacuug -5' |
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| 31765 | 3' | -50 | NC_006938.1 | + | 15766 | 1.13 | 0.002596 |
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Target: 5'- gCCGUACUCGAAGCCGACGACUUGAACa -3' miRNA: 3'- -GGCAUGAGCUUCGGCUGCUGAACUUG- -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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