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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 | |||||||
| 172 | 5' | -57 | AC_000007.1 | + | 5335 | 0.66 | 0.484904 |
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Target: 5'- gUGCgcuccgGGCUGCGCGCuGGCCa- -3' miRNA: 3'- -ACGaacuaaCCGGCGUGCGcCUGGag -5' |
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| 172 | 5' | -57 | AC_000007.1 | + | 10000 | 0.66 | 0.443686 |
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Target: 5'- gGCggcgGAguUUGGCCGUAgGUGGcgcCCUCu -3' miRNA: 3'- aCGaa--CU--AACCGGCGUgCGCCu--GGAG- -5' |
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| 172 | 5' | -57 | AC_000007.1 | + | 10792 | 0.67 | 0.423829 |
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Target: 5'- aGCUuuuuUGGccacUGGCCGCGCGCGG-CgUa -3' miRNA: 3'- aCGA----ACUa---ACCGGCGUGCGCCuGgAg -5' |
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| 172 | 5' | -57 | AC_000007.1 | + | 25074 | 0.67 | 0.404513 |
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Target: 5'- aGCUaaUGA-UGGCCGCAgugcuuguuacCGUGGAgCUUg -3' miRNA: 3'- aCGA--ACUaACCGGCGU-----------GCGCCUgGAG- -5' |
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| 172 | 5' | -57 | AC_000007.1 | + | 25475 | 0.67 | 0.395066 |
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Target: 5'- cGCUccg-UGGCCGCGCaccugGCGGACauuaUCu -3' miRNA: 3'- aCGAacuaACCGGCGUG-----CGCCUGg---AG- -5' |
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| 172 | 5' | -57 | AC_000007.1 | + | 8350 | 0.69 | 0.316705 |
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Target: 5'- aGCUccGAcc-GCCGCGCGCGGACaUCu -3' miRNA: 3'- aCGAa-CUaacCGGCGUGCGCCUGgAG- -5' |
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| 172 | 5' | -57 | AC_000007.1 | + | 18692 | 0.7 | 0.285833 |
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Target: 5'- gGCUacg--GGCCGCAucgauCGCGGACCg- -3' miRNA: 3'- aCGAacuaaCCGGCGU-----GCGCCUGGag -5' |
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| 172 | 5' | -57 | AC_000007.1 | + | 17177 | 1.1 | 0.00028 |
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Target: 5'- cUGCUUGAUUGGCCGCACGCGGACCUCg -3' miRNA: 3'- -ACGAACUAACCGGCGUGCGCCUGGAG- -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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