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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 | |||||||
| 12262 | 3' | -53.6 | NC_003309.1 | + | 6091 | 0.66 | 0.79862 |
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Target: 5'- -aGCGAUCgaCUCGaCGuGACGCGGGc- -3' miRNA: 3'- uaUGCUGGaaGAGC-GC-CUGCGUCUug -5' |
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| 12262 | 3' | -53.6 | NC_003309.1 | + | 35144 | 0.67 | 0.703947 |
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Target: 5'- -aACGAguUCUUCUCGUGcGAUGCGcuGGACg -3' miRNA: 3'- uaUGCU--GGAAGAGCGC-CUGCGU--CUUG- -5' |
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| 12262 | 3' | -53.6 | NC_003309.1 | + | 46305 | 0.69 | 0.603281 |
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Target: 5'- -cACGGCCUUCU-GCGcACGC-GAGCg -3' miRNA: 3'- uaUGCUGGAAGAgCGCcUGCGuCUUG- -5' |
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| 12262 | 3' | -53.6 | NC_003309.1 | + | 38045 | 0.69 | 0.580929 |
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Target: 5'- -gACGACCUUCcgcauagcCGCGGACGUuccGGCa -3' miRNA: 3'- uaUGCUGGAAGa-------GCGCCUGCGuc-UUG- -5' |
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| 12262 | 3' | -53.6 | NC_003309.1 | + | 10678 | 0.71 | 0.483451 |
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Target: 5'- -gGCGGCCgUCUCGCGGGCGa----- -3' miRNA: 3'- uaUGCUGGaAGAGCGCCUGCgucuug -5' |
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| 12262 | 3' | -53.6 | NC_003309.1 | + | 45491 | 0.72 | 0.452677 |
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Target: 5'- -gACGACCUUCcaaaUCGUGGACGCc---- -3' miRNA: 3'- uaUGCUGGAAG----AGCGCCUGCGucuug -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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