miRNA: 3'- -UGUCGCGCUCGaaa--UAGUU--GCUUaCU- -5'
miRNA: 3'- -UGUCGCGCUCGaaaUAGUuGCUUacu -5'
miRNA: 3'- -UGUCGCgCUCGaaauag-UUGCuuACU- -5'
miRNA: 3'- -UGUC---GCGCUCGaaa--UAG-UUGCUUACU- -5'
miRNA: 3'- -UGUCGCGCUCGAAAUAGUUGCUUACU- -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 | |||||||
| 9172 | 3' | -47.1 | NC_002512.2 | + | 223911 | 0.71 | 0.996267 |
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Target: 5'- aGCGGCGCGGGCgagagGUCGAgcCGGAcGGg -3' miRNA: 3'- -UGUCGCGCUCGaaa--UAGUU--GCUUaCU- -5' |
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| 9172 | 3' | -47.1 | NC_002512.2 | + | 140349 | 0.71 | 0.996267 |
|
Target: 5'- aGCGGCGUGAGCgccGUCAcCGAAc-- -3' miRNA: 3'- -UGUCGCGCUCGaaaUAGUuGCUUacu -5' |
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| 9172 | 3' | -47.1 | NC_002512.2 | + | 97099 | 0.71 | 0.995479 |
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Target: 5'- gACGGCGgGGGCgacggcaAGCGggUGAa -3' miRNA: 3'- -UGUCGCgCUCGaaauag-UUGCuuACU- -5' |
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| 9172 | 3' | -47.1 | NC_002512.2 | + | 216739 | 0.74 | 0.978342 |
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Target: 5'- cGCAGgucCGCGAGCgcccgGUCgAACGAGUGGa -3' miRNA: 3'- -UGUC---GCGCUCGaaa--UAG-UUGCUUACU- -5' |
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| 9172 | 3' | -47.1 | NC_002512.2 | + | 41370 | 1.1 | 0.025596 |
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Target: 5'- gACAGCGCGAGCUUUAUCAACGAAUGAu -3' miRNA: 3'- -UGUCGCGCUCGAAAUAGUUGCUUACU- -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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