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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 | |||||||
| 17235 | 3' | -45.2 | NC_004348.1 | + | 18411 | 0.66 | 0.993573 |
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Target: 5'- aGACgaaGGAgGACGuAUGGCAcgacagcgACGAAGUa -3' miRNA: 3'- gUUGa--CCUaUUGC-UACCGU--------UGUUUCA- -5' |
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| 17235 | 3' | -45.2 | NC_004348.1 | + | 20771 | 0.66 | 0.992422 |
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Target: 5'- gGACgGGGUGGCGAUGG--AUGGAGa -3' miRNA: 3'- gUUGaCCUAUUGCUACCguUGUUUCa -5' |
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| 17235 | 3' | -45.2 | NC_004348.1 | + | 23030 | 0.66 | 0.992422 |
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Target: 5'- -uGCcGGAgcaUAACGaAUGGCAaagACGAAGUg -3' miRNA: 3'- guUGaCCU---AUUGC-UACCGU---UGUUUCA- -5' |
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| 17235 | 3' | -45.2 | NC_004348.1 | + | 33113 | 0.67 | 0.984006 |
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Target: 5'- aGACUGGAUGGaccgcGGCAACAG-GUa -3' miRNA: 3'- gUUGACCUAUUgcua-CCGUUGUUuCA- -5' |
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| 17235 | 3' | -45.2 | NC_004348.1 | + | 23170 | 0.67 | 0.981693 |
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Target: 5'- gCGGCgGGAaugagaugcUGGCGggGGCAACAcAGUc -3' miRNA: 3'- -GUUGaCCU---------AUUGCuaCCGUUGUuUCA- -5' |
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| 17235 | 3' | -45.2 | NC_004348.1 | + | 11126 | 0.73 | 0.835211 |
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Target: 5'- gUAACUGGGUaAGCGuauuuuUGGCAGCGAAu- -3' miRNA: 3'- -GUUGACCUA-UUGCu-----ACCGUUGUUUca -5' |
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| 17235 | 3' | -45.2 | NC_004348.1 | + | 29626 | 1.08 | 0.008847 |
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Target: 5'- gCAACUGGAUAACGAUGGCAACAAAGUu -3' miRNA: 3'- -GUUGACCUAUUGCUACCGUUGUUUCA- -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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