miRNA: 3'- -CCUUUGaGGUGG-AGGUAGAauaCGGC- -5'
miRNA: 3'- cCU-UUGaGGUGGaGGUAGA-----AUACGGC- -5'
miRNA: 3'- ccUUUGAGGUGGaGGUAGaa-UACGGc -5'
miRNA: 3'- cCUUUGAGGUGGAGGUaGAAuaCGGc -5'
miRNA: 3'- -CCUUUGAGGUGGAGGUAGAAUACGGC- -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 | |||||||
| 8534 | 5' | -49.7 | NC_002169.1 | + | 30726 | 0.66 | 0.995839 |
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Target: 5'- cGGAAACaCUAUCgUCCAUCUc--GCCGc -3' miRNA: 3'- -CCUUUGaGGUGG-AGGUAGAauaCGGC- -5' |
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| 8534 | 5' | -49.7 | NC_002169.1 | + | 35500 | 0.66 | 0.995129 |
|
Target: 5'- cGAuAAUcCCGCCgCCGUCUacuuuUAUGCCGa -3' miRNA: 3'- cCU-UUGaGGUGGaGGUAGA-----AUACGGC- -5' |
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| 8534 | 5' | -49.7 | NC_002169.1 | + | 67417 | 0.75 | 0.771174 |
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Target: 5'- -aAAACUCCACCgCCAUCacgAUGCCc -3' miRNA: 3'- ccUUUGAGGUGGaGGUAGaa-UACGGc -5' |
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| 8534 | 5' | -49.7 | NC_002169.1 | + | 74110 | 0.81 | 0.449495 |
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Target: 5'- aGAAACUCUACCUCCG-CUUcgGCCc -3' miRNA: 3'- cCUUUGAGGUGGAGGUaGAAuaCGGc -5' |
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| 8534 | 5' | -49.7 | NC_002169.1 | + | 7546 | 1.12 | 0.00726 |
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Target: 5'- cGGAAACUCCACCUCCAUCUUAUGCCGc -3' miRNA: 3'- -CCUUUGAGGUGGAGGUAGAAUACGGC- -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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