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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 | |||||||
| 28368 | 5' | -57 | NC_005946.1 | + | 17707 | 0.66 | 0.791382 |
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Target: 5'- gACgUUGGAggaugaGCCGGUGACcgccccccuggacagGCucaUGAGCCUg -3' miRNA: 3'- -UGgAACCU------CGGCCACUG---------------CG---ACUUGGA- -5' |
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| 28368 | 5' | -57 | NC_005946.1 | + | 26413 | 0.66 | 0.787647 |
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Target: 5'- uCCUcgGGAGCCGGUuucAgGCUGcuCCUg -3' miRNA: 3'- uGGAa-CCUCGGCCAc--UgCGACuuGGA- -5' |
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| 28368 | 5' | -57 | NC_005946.1 | + | 61992 | 0.66 | 0.778209 |
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Target: 5'- uGCCcUGGAGCUGuGgagGAgGCUGGGgCUg -3' miRNA: 3'- -UGGaACCUCGGC-Ca--CUgCGACUUgGA- -5' |
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| 28368 | 5' | -57 | NC_005946.1 | + | 36412 | 0.67 | 0.739184 |
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Target: 5'- ----aGGGGCaCGGaggGACGCgGAACCUg -3' miRNA: 3'- uggaaCCUCG-GCCa--CUGCGaCUUGGA- -5' |
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| 28368 | 5' | -57 | NC_005946.1 | + | 26204 | 1.07 | 0.002097 |
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Target: 5'- cACCUUGGAGCCGGUGACGCUGAACCUc -3' miRNA: 3'- -UGGAACCUCGGCCACUGCGACUUGGA- -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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