miRNA: 3'- aACGCUAGcuGCA-UUAGCCuu--CGGCU- -5'
miRNA: 3'- -AACGcUAGCUGca------------UUAGCCU--UCGGCU- -5'
miRNA: 3'- aaCGCUAGC---UGCauUA----GCCUuCGGCU- -5'
miRNA: 3'- aaCGCuAGCUGCa-----UUAGCCU-UCG-GCU- -5'
miRNA: 3'- -AACGCuAGCUGCAUUAGCCUUCGGCU- -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 |
| Predicted miRNA align pattern | |||||||
| 24812 | 3' | -51.6 | NC_005284.1 | + | 39505 | 0.67 | 0.841815 |
|
Target: 5'- gUGCGGUCcuCGUcGGUCGGcuguGCCGAu -3' miRNA: 3'- aACGCUAGcuGCA-UUAGCCuu--CGGCU- -5' |
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| 24812 | 3' | -51.6 | NC_005284.1 | + | 47282 | 0.66 | 0.876573 |
|
Target: 5'- aUUGCcGUCGACcgagaauucgcccgGAUCGGGcaAGCCGAg -3' miRNA: 3'- -AACGcUAGCUGca------------UUAGCCU--UCGGCU- -5' |
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| 24812 | 3' | -51.6 | NC_005284.1 | + | 19627 | 0.66 | 0.89119 |
|
Target: 5'- -cGCGAUCGcacACGgcAUacaaCGGA-GCCGAc -3' miRNA: 3'- aaCGCUAGC---UGCauUA----GCCUuCGGCU- -5' |
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| 24812 | 3' | -51.6 | NC_005284.1 | + | 5977 | 0.66 | 0.89119 |
|
Target: 5'- -cGCG-UCGACGggaaccAGUCGGGcAGCuCGAu -3' miRNA: 3'- aaCGCuAGCUGCa-----UUAGCCU-UCG-GCU- -5' |
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| 24812 | 3' | -51.6 | NC_005284.1 | + | 48897 | 0.97 | 0.015957 |
|
Target: 5'- cUUGCG-UCGACGUAAUCGGAAGCCGAu -3' miRNA: 3'- -AACGCuAGCUGCAUUAGCCUUCGGCU- -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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