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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 31672 | 5' | -40 | NC_006883.1 | + | 63452 | 0.7 | 1 |
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Target: 5'- aGUUAgAaUGUGUCAUAaGUGGUGAUg -3' miRNA: 3'- aCAAUgUaAUAUAGUGUgUACUACUG- -5' |
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| 31672 | 5' | -40 | NC_006883.1 | + | 251869 | 0.68 | 1 |
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Target: 5'- cGUUG-AUUGUAUUGCugAguaUGAUGGCg -3' miRNA: 3'- aCAAUgUAAUAUAGUGugU---ACUACUG- -5' |
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| 31672 | 5' | -40 | NC_006883.1 | + | 114727 | 0.66 | 1 |
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Target: 5'- -uUUACAUguaGUCcCACAUGuAUGACu -3' miRNA: 3'- acAAUGUAauaUAGuGUGUAC-UACUG- -5' |
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| 31672 | 5' | -40 | NC_006883.1 | + | 183745 | 0.67 | 1 |
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Target: 5'- --aUACcaUGUAUCAUACAUGAauauguaguauaUGGCa -3' miRNA: 3'- acaAUGuaAUAUAGUGUGUACU------------ACUG- -5' |
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| 31672 | 5' | -40 | NC_006883.1 | + | 237289 | 0.69 | 1 |
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Target: 5'- aUGUUuaAUAUUAUAUCAUugGUGAUu-- -3' miRNA: 3'- -ACAA--UGUAAUAUAGUGugUACUAcug -5' |
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| 31672 | 5' | -40 | NC_006883.1 | + | 68484 | 1.14 | 0.091727 |
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Target: 5'- gUGUUACAUUAUAUCACACAUGAUGACg -3' miRNA: 3'- -ACAAUGUAAUAUAGUGUGUACUACUG- -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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