miRNA: 3'- uCCAUUCGGCCACCGGCgu--GUUCgca -5'
miRNA: 3'- -UCCAU--UCGGCCA----CCGGCGuGUUCGca -5'
miRNA: 3'- -UCCa---UUCgGCCa--CCGGCGUGuUCGCA- -5'
miRNA: 3'- uCCA-UUCGGc---CACCGgCGUGUUCGCa -5'
miRNA: 3'- -UCCAUUCGGCCACCGGCGUGUUCGCA- -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 | |||||||
| 31925 | 5' | -58.2 | NC_006940.1 | + | 37908 | 0.68 | 0.324433 |
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Target: 5'- cGGUGAGUCGGUGGUCGaggcCAAGa-- -3' miRNA: 3'- uCCAUUCGGCCACCGGCgu--GUUCgca -5' |
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| 31925 | 5' | -58.2 | NC_006940.1 | + | 23626 | 0.69 | 0.301017 |
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Target: 5'- gGGGUAcaAGCUGGUugaaGGCCGCcCGGGUa- -3' miRNA: 3'- -UCCAU--UCGGCCA----CCGGCGuGUUCGca -5' |
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| 31925 | 5' | -58.2 | NC_006940.1 | + | 5320 | 0.69 | 0.271857 |
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Target: 5'- cGGGaauaAAGgCGGcggGGCCGCACcAGCGUu -3' miRNA: 3'- -UCCa---UUCgGCCa--CCGGCGUGuUCGCA- -5' |
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| 31925 | 5' | -58.2 | NC_006940.1 | + | 19151 | 0.7 | 0.264931 |
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Target: 5'- cGGUaGAGCUuaccGUGGCgGUACAAGCGg -3' miRNA: 3'- uCCA-UUCGGc---CACCGgCGUGUUCGCa -5' |
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| 31925 | 5' | -58.2 | NC_006940.1 | + | 19876 | 1.07 | 0.000392 |
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Target: 5'- aAGGUAAGCCGGUGGCCGCACAAGCGUa -3' miRNA: 3'- -UCCAUUCGGCCACCGGCGUGUUCGCA- -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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