miRNA: 3'- -UCAUCUACug---CCGuuCCUAUu--CCUUG- -5'
miRNA: 3'- -UCAUCuACUGCCGUU-------------CCUaUUCC-UUG- -5'
miRNA: 3'- -UCAUCuACugCcgUUCCUaUUCCUUG- -5'
miRNA: 3'- ucaUCUACUGCCGUUCCUAU------------UCCUUG- -5'
miRNA: 3'- -UCAUCUACUGCCGUUCCUAUUCCUUG- -5'
Results 1 - 5 of 5 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 | |||||||
| 15438 | 3' | -48.1 | NC_003930.1 | + | 6588 | 0.66 | 0.651948 |
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Target: 5'- gAGUGGAUGucauaGGUccGGGUAcuuGGGACu -3' miRNA: 3'- -UCAUCUACug---CCGuuCCUAUu--CCUUG- -5' |
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| 15438 | 3' | -48.1 | NC_003930.1 | + | 10890 | 0.67 | 0.559352 |
|
Target: 5'- aAGUGG-UGACGGCAGuccacguuuacguGGAcGGGGuAACa -3' miRNA: 3'- -UCAUCuACUGCCGUU-------------CCUaUUCC-UUG- -5' |
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| 15438 | 3' | -48.1 | NC_003930.1 | + | 4786 | 0.71 | 0.3616 |
|
Target: 5'- aAGUGGuUGugGaaGAGGAaGAGGAACa -3' miRNA: 3'- -UCAUCuACugCcgUUCCUaUUCCUUG- -5' |
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| 15438 | 3' | -48.1 | NC_003930.1 | + | 1107 | 0.82 | 0.061279 |
|
Target: 5'- --cAGAUGACGGCGGGGAUGuaggucaccacuGGGAAUg -3' miRNA: 3'- ucaUCUACUGCCGUUCCUAU------------UCCUUG- -5' |
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| 15438 | 3' | -48.1 | NC_003930.1 | + | 11782 | 1.12 | 0.000416 |
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Target: 5'- cAGUAGAUGACGGCAAGGAUAAGGAACa -3' miRNA: 3'- -UCAUCUACUGCCGUUCCUAUUCCUUG- -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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