miRNA: 3'- -CGuACCA-AACG---UUACGGCUGUGAugG- -5'
miRNA: 3'- cgUACCAAACguua-CGGC---UGUGAUGG- -5'
miRNA: 3'- cGUACcaaACGUUA-CGGcUGUGAUGG- -5'
miRNA: 3'- -CGUACCAAACGUUACGGCUGUGAUGG- -5'
Results 1 - 4 of 4 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 | |||||||
| 31578 | 5' | -48.1 | NC_006852.1 | + | 113 | 0.67 | 0.873185 |
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Target: 5'- gGCcUGGUcUUGUcauAGUGCUGACAUUugUg -3' miRNA: 3'- -CGuACCA-AACG---UUACGGCUGUGAugG- -5' |
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| 31578 | 5' | -48.1 | NC_006852.1 | + | 2164 | 0.68 | 0.855411 |
|
Target: 5'- -aAUGGUUUGacuuaGCCGuggACACUGCUg -3' miRNA: 3'- cgUACCAAACguua-CGGC---UGUGAUGG- -5' |
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| 31578 | 5' | -48.1 | NC_006852.1 | + | 5866 | 0.68 | 0.826672 |
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Target: 5'- aCAUGcg-UGUAGUgGCCcACACUACCa -3' miRNA: 3'- cGUACcaaACGUUA-CGGcUGUGAUGG- -5' |
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| 31578 | 5' | -48.1 | NC_006852.1 | + | 12556 | 1.16 | 0.000955 |
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Target: 5'- aGCAUGGUUUGCAAUGCCGACACUACCu -3' miRNA: 3'- -CGUACCAAACGUUACGGCUGUGAUGG- -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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