miRNA: 3'- -GGuAGGGGUGg---GUGGGAA------GAGGUCCU- -5'
miRNA: 3'- -GG-UAGGGGu---GGGUGGGA---AGAGGUCCU- -5'
miRNA: 3'- gGUAGGGGUGGGUGGGaaGAGGUCCU- -5'
miRNA: 3'- -GGUAGGGGUGGGUGGGAAGAGGUCCU- -5'
Results 21 - 24 of 24 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 | |||||||
| 13288 | 3' | -58.4 | NC_003409.1 | + | 103387 | 0.73 | 0.395282 |
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Target: 5'- uCCcUUCCCACaggaCGCCCUUucugaaCUCCAGGAa -3' miRNA: 3'- -GGuAGGGGUGg---GUGGGAA------GAGGUCCU- -5' |
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| 13288 | 3' | -58.4 | NC_003409.1 | + | 126972 | 0.76 | 0.290207 |
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Target: 5'- cCCaAUCCCUccauCCCAUCCUgugUCUCCGGGGa -3' miRNA: 3'- -GG-UAGGGGu---GGGUGGGA---AGAGGUCCU- -5' |
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| 13288 | 3' | -58.4 | NC_003409.1 | + | 11523 | 0.77 | 0.246461 |
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Target: 5'- aCAUUUCCACCCACCUacUUCCAGGGc -3' miRNA: 3'- gGUAGGGGUGGGUGGGaaGAGGUCCU- -5' |
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| 13288 | 3' | -58.4 | NC_003409.1 | + | 33418 | 1.1 | 0.001318 |
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Target: 5'- cCCAUCCCCACCCACCCUUCUCCAGGAg -3' miRNA: 3'- -GGUAGGGGUGGGUGGGAAGAGGUCCU- -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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