miRNA: 3'- -GCU-GGGCUCgUGCCGUaUGC---AGCACG- -5'
miRNA: 3'- gCUGGGC---UCGUG-CCGua---UGCAGCaCG- -5'
miRNA: 3'- gCUGGgcUCGUGC-CGU--AUGCAGCaCG- -5'
miRNA: 3'- -GCUgGGCUCGUGcCGUa--UGCAGCa-CG- -5'
miRNA: 3'- gCUGGGCUCGu-------GCCGuauGCAgCACG- -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 | |||||||
| 23346 | 3' | -55.8 | NC_005259.1 | + | 17053 | 0.66 | 0.774053 |
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Target: 5'- gCGAcCCCGAG-GCGGUGcGCGcauUUGUGCg -3' miRNA: 3'- -GCU-GGGCUCgUGCCGUaUGC---AGCACG- -5' |
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| 23346 | 3' | -55.8 | NC_005259.1 | + | 2142 | 0.66 | 0.78373 |
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Target: 5'- aGACCCGcacGGUGCuGGCcagcgGCGUCGaGCc -3' miRNA: 3'- gCUGGGC---UCGUG-CCGua---UGCAGCaCG- -5' |
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| 23346 | 3' | -55.8 | NC_005259.1 | + | 36237 | 0.66 | 0.78373 |
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Target: 5'- uGGCC--AGCGCGaGCGccUGCGUCG-GCa -3' miRNA: 3'- gCUGGgcUCGUGC-CGU--AUGCAGCaCG- -5' |
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| 23346 | 3' | -55.8 | NC_005259.1 | + | 53011 | 0.66 | 0.78373 |
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Target: 5'- uCGA-CUGGGCGCuGCGgugGCGUCGagGCa -3' miRNA: 3'- -GCUgGGCUCGUGcCGUa--UGCAGCa-CG- -5' |
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| 23346 | 3' | -55.8 | NC_005259.1 | + | 4683 | 0.66 | 0.79326 |
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Target: 5'- uGGCUCGGGCcgacagcuCGGCcc-CGUgGUGCg -3' miRNA: 3'- gCUGGGCUCGu-------GCCGuauGCAgCACG- -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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