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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 | |||||||
| 16650 | 3' | -54.7 | NC_004156.1 | + | 180915 | 0.66 | 0.956593 |
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Target: 5'- ----cGCACCGGCUACguggUGGCCgACGg -3' miRNA: 3'- uucgaUGUGGCCGAUGa---GUCGGaUGU- -5' |
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| 16650 | 3' | -54.7 | NC_004156.1 | + | 123180 | 0.68 | 0.918571 |
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Target: 5'- gAAGCUACACCGGCa--UCGuCCgagACAc -3' miRNA: 3'- -UUCGAUGUGGCCGaugAGUcGGa--UGU- -5' |
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| 16650 | 3' | -54.7 | NC_004156.1 | + | 113558 | 0.68 | 0.900352 |
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Target: 5'- aGAGCUGCAaaGG-UACaagUAGCCUACAa -3' miRNA: 3'- -UUCGAUGUggCCgAUGa--GUCGGAUGU- -5' |
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| 16650 | 3' | -54.7 | NC_004156.1 | + | 123122 | 0.7 | 0.807652 |
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Target: 5'- cGGCUACACCGGCcucuuCUgAaCCUACAc -3' miRNA: 3'- uUCGAUGUGGCCGau---GAgUcGGAUGU- -5' |
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| 16650 | 3' | -54.7 | NC_004156.1 | + | 183455 | 0.71 | 0.7896 |
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Target: 5'- -uGCUGCGgUGGCguacuCUCAGCuCUACAa -3' miRNA: 3'- uuCGAUGUgGCCGau---GAGUCG-GAUGU- -5' |
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| 16650 | 3' | -54.7 | NC_004156.1 | + | 8976 | 0.71 | 0.751848 |
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Target: 5'- uGGCUuCGCCGGUUGCUCGGa-UGCAu -3' miRNA: 3'- uUCGAuGUGGCCGAUGAGUCggAUGU- -5' |
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| 16650 | 3' | -54.7 | NC_004156.1 | + | 123225 | 1.06 | 0.006638 |
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Target: 5'- gAAGCUACACCGGCUACUCAGCCUACAu -3' miRNA: 3'- -UUCGAUGUGGCCGAUGAGUCGGAUGU- -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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