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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 | |||||||
| 350 | 5' | -49.4 | AC_000011.1 | + | 13438 | 0.66 | 0.902753 |
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Target: 5'- -gGGAaagGACUGGCGGCCUcGGGcaccGCCGc -3' miRNA: 3'- gaUCU---UUGACUGUUGGA-CUCa---CGGCu -5' |
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| 350 | 5' | -49.4 | AC_000011.1 | + | 23062 | 0.68 | 0.819078 |
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Target: 5'- -gAGGAGCUGGCGGCCguggGcuucagcuaccccccGGUGCgGAu -3' miRNA: 3'- gaUCUUUGACUGUUGGa---C---------------UCACGgCU- -5' |
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| 350 | 5' | -49.4 | AC_000011.1 | + | 6018 | 0.68 | 0.815067 |
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Target: 5'- uCUAGAAACgagGAgGAUUUGAuauugacgGUGCCGGc -3' miRNA: 3'- -GAUCUUUGa--CUgUUGGACU--------CACGGCU- -5' |
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| 350 | 5' | -49.4 | AC_000011.1 | + | 12518 | 0.7 | 0.705444 |
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Target: 5'- --cGggGCacguUGGCGGgCUGGGUGCUGAg -3' miRNA: 3'- gauCuuUG----ACUGUUgGACUCACGGCU- -5' |
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| 350 | 5' | -49.4 | AC_000011.1 | + | 11145 | 0.71 | 0.611008 |
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Target: 5'- -cGGGAGCUGcggcGCGGCCUGgaccgaaagagGGUGCUGAg -3' miRNA: 3'- gaUCUUUGAC----UGUUGGAC-----------UCACGGCU- -5' |
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| 350 | 5' | -49.4 | AC_000011.1 | + | 11577 | 0.72 | 0.573253 |
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Target: 5'- -gAGAAGCUGGCGGCCaucaacuucucGGUGCUGAg -3' miRNA: 3'- gaUCUUUGACUGUUGGac---------UCACGGCU- -5' |
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| 350 | 5' | -49.4 | AC_000011.1 | + | 10986 | 0.73 | 0.51779 |
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Target: 5'- -gAGggGCUGGCGcGCCUGGGggcgucgucGCCGGa -3' miRNA: 3'- gaUCuuUGACUGU-UGGACUCa--------CGGCU- -5' |
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| 350 | 5' | -49.4 | AC_000011.1 | + | 6059 | 1.1 | 0.001986 |
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Target: 5'- uCUAGAAACUGACAACCUGAGUGCCGAg -3' miRNA: 3'- -GAUCUUUGACUGUUGGACUCACGGCU- -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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