miRNA: 3'- uCGCGCCaGC------------UACGCGUa--GgGUACGU- -5'
miRNA: 3'- uCGCGCCAGcuACGCGUa--GGGUACGu -5'
miRNA: 3'- -UCGCGCCaGCUaCGCGuaGGgUACGU- -5'
miRNA: 3'- -UCGCGCCAGCUa-----CGCGUAGg---------GUACGU- -5'
miRNA: 3'- -UCGCGCCAGCUACGCGUAGGGUACGU- -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 | |||||||
| 24244 | 5' | -57.8 | NC_005263.2 | + | 2696 | 0.69 | 0.343947 |
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Target: 5'- cGCGCGGcCGcucggcaggugcAUGCGCAgcgCgCGUGCAu -3' miRNA: 3'- uCGCGCCaGC------------UACGCGUa--GgGUACGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 37452 | 0.74 | 0.171074 |
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Target: 5'- cGCGCGGUC--UGCGCGgcgUCCAUGUg -3' miRNA: 3'- uCGCGCCAGcuACGCGUa--GGGUACGu -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 19877 | 0.75 | 0.137238 |
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Target: 5'- gAGCGCGG-CGA-GCGCggCCgAUGCAg -3' miRNA: 3'- -UCGCGCCaGCUaCGCGuaGGgUACGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 6629 | 0.76 | 0.122725 |
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Target: 5'- cGGCGCGGUCGAgcagucGCGCGUCggucgcuucaCGUGCGg -3' miRNA: 3'- -UCGCGCCAGCUa-----CGCGUAGg---------GUACGU- -5' |
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| 24244 | 5' | -57.8 | NC_005263.2 | + | 5870 | 1.08 | 0.000467 |
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Target: 5'- aAGCGCGGUCGAUGCGCAUCCCAUGCAg -3' miRNA: 3'- -UCGCGCCAGCUACGCGUAGGGUACGU- -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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