miRNA: 3'- gACGGUUGG-GC-------------AUGGCUAAUGaCGGu -5'
miRNA: 3'- -GACgGUUGGG--CAUGGCUaAUGACGgu -5'
miRNA: 3'- gaCGGUUG-GGCAUGGCUA-----AUGaCGGU- -5'
miRNA: 3'- -GACGGUUGGGCAUGGCUAAUGACGGU- -5'
Results 21 - 24 of 24 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 | |||||||
| 23971 | 5' | -53.3 | NC_005262.1 | + | 60294 | 0.72 | 0.522947 |
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Target: 5'- uUGCCGACCuCGccggccggcuccuUGCCGGUUGCcGCCc -3' miRNA: 3'- gACGGUUGG-GC-------------AUGGCUAAUGaCGGu -5' |
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| 23971 | 5' | -53.3 | NC_005262.1 | + | 62848 | 0.74 | 0.394362 |
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Target: 5'- gCUGgCGACCCacGUGCCGAaUGCUGCg- -3' miRNA: 3'- -GACgGUUGGG--CAUGGCUaAUGACGgu -5' |
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| 23971 | 5' | -53.3 | NC_005262.1 | + | 24836 | 0.76 | 0.317647 |
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Target: 5'- -gGCCGGCgCCGUGCCGAUcacccUGC-GCCAg -3' miRNA: 3'- gaCGGUUG-GGCAUGGCUA-----AUGaCGGU- -5' |
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| 23971 | 5' | -53.3 | NC_005262.1 | + | 1085 | 1.09 | 0.001943 |
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Target: 5'- gCUGCCAACCCGUACCGAUUACUGCCAc -3' miRNA: 3'- -GACGGUUGGGCAUGGCUAAUGACGGU- -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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