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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 | |||||||
| 20790 | 5' | -55.5 | NC_004689.1 | + | 1859 | 0.66 | 0.805644 |
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Target: 5'- gCCUUGCCcuuggCgCGCUGAUCcgauGCuGCGGCc- -3' miRNA: 3'- -GGAAUGGa----G-GCGACUAG----CG-UGCCGcu -5' |
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| 20790 | 5' | -55.5 | NC_004689.1 | + | 35438 | 0.66 | 0.805644 |
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Target: 5'- ---gGCCgggUCCGCUGcAUUGCggaGCGGCGu -3' miRNA: 3'- ggaaUGG---AGGCGAC-UAGCG---UGCCGCu -5' |
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| 20790 | 5' | -55.5 | NC_004689.1 | + | 60199 | 0.66 | 0.805644 |
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Target: 5'- gCUgGCUUCCucGCUGAUUGCGuCaGCGAa -3' miRNA: 3'- gGAaUGGAGG--CGACUAGCGU-GcCGCU- -5' |
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| 20790 | 5' | -55.5 | NC_004689.1 | + | 26070 | 0.66 | 0.79629 |
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Target: 5'- gCUUcGCCcaugCCGCUGcUCGCuCGGuCGAa -3' miRNA: 3'- gGAA-UGGa---GGCGACuAGCGuGCC-GCU- -5' |
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| 20790 | 5' | -55.5 | NC_004689.1 | + | 5163 | 0.66 | 0.79629 |
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Target: 5'- gCCgUGCCUguucgUCGCUGAUaGCGCcGCGAu -3' miRNA: 3'- -GGaAUGGA-----GGCGACUAgCGUGcCGCU- -5' |
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| 20790 | 5' | -55.5 | NC_004689.1 | + | 13897 | 0.66 | 0.786773 |
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Target: 5'- cCCUcACCggaagCCGgaGAcgggUCGCccuCGGCGAa -3' miRNA: 3'- -GGAaUGGa----GGCgaCU----AGCGu--GCCGCU- -5' |
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| 20790 | 5' | -55.5 | NC_004689.1 | + | 48563 | 0.68 | 0.652992 |
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Target: 5'- uCgUUGCCguugUCCGCUucGGUCGCgACGGCu- -3' miRNA: 3'- -GgAAUGG----AGGCGA--CUAGCG-UGCCGcu -5' |
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| 20790 | 5' | -55.5 | NC_004689.1 | + | 29634 | 1.1 | 0.001197 |
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Target: 5'- gCCUUACCUCCGCUGAUCGCACGGCGAc -3' miRNA: 3'- -GGAAUGGAGGCGACUAGCGUGCCGCU- -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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