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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 | |||||||
| 20865 | 3' | -48.4 | NC_004689.1 | + | 10611 | 0.66 | 0.992385 |
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Target: 5'- uCUGCGgaGCGCCugcCGGAGacguUGCGGGCGg -3' miRNA: 3'- -GAUGC--UGUGGcaaGUCUU----ACGCUUGC- -5' |
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| 20865 | 3' | -48.4 | NC_004689.1 | + | 17186 | 0.66 | 0.991179 |
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Target: 5'- uUACGAgggaACCGUgacCAGGAUcgGCGGGCa -3' miRNA: 3'- gAUGCUg---UGGCAa--GUCUUA--CGCUUGc -5' |
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| 20865 | 3' | -48.4 | NC_004689.1 | + | 42334 | 0.66 | 0.991179 |
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Target: 5'- aCUGCgGGCAUaCGUUCGcAAUgGCGAACGu -3' miRNA: 3'- -GAUG-CUGUG-GCAAGUcUUA-CGCUUGC- -5' |
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| 20865 | 3' | -48.4 | NC_004689.1 | + | 8130 | 0.67 | 0.984793 |
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Target: 5'- -cACGACugaCGUUgCGGGAUGCGuACa -3' miRNA: 3'- gaUGCUGug-GCAA-GUCUUACGCuUGc -5' |
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| 20865 | 3' | -48.4 | NC_004689.1 | + | 40882 | 0.67 | 0.984793 |
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Target: 5'- --cCGuCGCCGUUCGGAucGCGcACGu -3' miRNA: 3'- gauGCuGUGGCAAGUCUuaCGCuUGC- -5' |
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| 20865 | 3' | -48.4 | NC_004689.1 | + | 31624 | 0.67 | 0.984793 |
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Target: 5'- --cCGACACCa--CAGAcgGUGAACa -3' miRNA: 3'- gauGCUGUGGcaaGUCUuaCGCUUGc -5' |
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| 20865 | 3' | -48.4 | NC_004689.1 | + | 44137 | 0.67 | 0.979058 |
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Target: 5'- -aACGGCACUGUgcgCAGaAcuuugauccucgggcAUGCGAACa -3' miRNA: 3'- gaUGCUGUGGCAa--GUC-U---------------UACGCUUGc -5' |
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| 20865 | 3' | -48.4 | NC_004689.1 | + | 12651 | 0.69 | 0.958364 |
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Target: 5'- -cAUGACGCCGcgcCGGAacGUGCGAAUc -3' miRNA: 3'- gaUGCUGUGGCaa-GUCU--UACGCUUGc -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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