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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 | |||||||
| 383 | 5' | -56.8 | AC_000011.1 | + | 23463 | 0.67 | 0.455548 |
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Target: 5'- -cCGCCCAGCcccgccaCCUCCGAcGCGgccgUCCc -3' miRNA: 3'- caGCGGGUCGc------GGAGGUU-UGCa---AGGu -5' |
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| 383 | 5' | -56.8 | AC_000011.1 | + | 12387 | 0.68 | 0.378448 |
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Target: 5'- cGUgGCCCAGCGCgagcggUUCCAccGCGagUCCAa -3' miRNA: 3'- -CAgCGGGUCGCG------GAGGUu-UGCa-AGGU- -5' |
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| 383 | 5' | -56.8 | AC_000011.1 | + | 10235 | 0.71 | 0.233035 |
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Target: 5'- -gCGCCCGGCGCCcccgccaCCGAGCGauggCCGc -3' miRNA: 3'- caGCGGGUCGCGGa------GGUUUGCaa--GGU- -5' |
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| 383 | 5' | -56.8 | AC_000011.1 | + | 16345 | 0.73 | 0.184317 |
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Target: 5'- -aCGCCCGGCgagcgcuccggcaccGCUUCCAAGCGcUCCu -3' miRNA: 3'- caGCGGGUCG---------------CGGAGGUUUGCaAGGu -5' |
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| 383 | 5' | -56.8 | AC_000011.1 | + | 9063 | 1.08 | 0.000419 |
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Target: 5'- cGUCGCCCAGCGCCUCCAAACGUUCCAu -3' miRNA: 3'- -CAGCGGGUCGCGGAGGUUUGCAAGGU- -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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