miRNA: 3'- aCGC-GUGUUGUAA-------ACCGuaCGCuaCG- -5'
miRNA: 3'- aCGCGUGUUGuaa------ACCGU---------ACGCUACg -5'
miRNA: 3'- aCGCGuGUUGUaaACCGUaCGCuaCG- -5'
miRNA: 3'- -ACGCGU-GUUGUAA--ACCGuACGCU--ACG- -5'
miRNA: 3'- -ACGCGUGUUGUAAACCGUACGCUACG- -5'
Results 41 - 45 of 45 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 | |||||||
| 12497 | 3' | -49.4 | NC_003324.1 | + | 27060 | 0.72 | 0.674046 |
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Target: 5'- cGCGaCGCGGCGUUaccguugUGGCcgGUGcgGCu -3' miRNA: 3'- aCGC-GUGUUGUAA-------ACCGuaCGCuaCG- -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 33379 | 0.72 | 0.663663 |
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Target: 5'- cGCGCGCAACuccggccacUGGCGgagaacgcuUGCGAUGa -3' miRNA: 3'- aCGCGUGUUGuaa------ACCGU---------ACGCUACg -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 42385 | 0.74 | 0.548431 |
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Target: 5'- gGCGCcCGGCAcgUGGCAgGCGgcGCa -3' miRNA: 3'- aCGCGuGUUGUaaACCGUaCGCuaCG- -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 35526 | 0.76 | 0.482125 |
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Target: 5'- cUGCGCAcCGACGUUggUGGC-UGUGAucUGCg -3' miRNA: 3'- -ACGCGU-GUUGUAA--ACCGuACGCU--ACG- -5' |
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| 12497 | 3' | -49.4 | NC_003324.1 | + | 56523 | 1.14 | 0.0017 |
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Target: 5'- cUGCGCACAACAUUUGGCAUGCGAUGCg -3' miRNA: 3'- -ACGCGUGUUGUAAACCGUACGCUACG- -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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