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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 | |||||||
| 27312 | 3' | -52.5 | NC_005856.1 | + | 33313 | 0.66 | 0.933016 |
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Target: 5'- -gCCAGcCAGGAGcguaaGCAUCACCa -3' miRNA: 3'- uaGGUUaGUCCUCaugg-CGUAGUGGg -5' |
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| 27312 | 3' | -52.5 | NC_005856.1 | + | 21162 | 0.67 | 0.902192 |
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Target: 5'- -aCCAAUCAGGAugacuuuGUuuacACCGCGUUguGCCa -3' miRNA: 3'- uaGGUUAGUCCU-------CA----UGGCGUAG--UGGg -5' |
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| 27312 | 3' | -52.5 | NC_005856.1 | + | 89409 | 0.67 | 0.896032 |
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Target: 5'- uUCCGgcAUCAGGugcaucauGUugCGCAUgaaaGCCCa -3' miRNA: 3'- uAGGU--UAGUCCu-------CAugGCGUAg---UGGG- -5' |
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| 27312 | 3' | -52.5 | NC_005856.1 | + | 56634 | 0.68 | 0.866153 |
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Target: 5'- --aUAAUCGGGAacuUCGCAUCAUCCg -3' miRNA: 3'- uagGUUAGUCCUcauGGCGUAGUGGG- -5' |
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| 27312 | 3' | -52.5 | NC_005856.1 | + | 69882 | 0.71 | 0.724836 |
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Target: 5'- aGUCCAGUCu--GGUGCgGCccgAUCACCCg -3' miRNA: 3'- -UAGGUUAGuccUCAUGgCG---UAGUGGG- -5' |
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| 27312 | 3' | -52.5 | NC_005856.1 | + | 13905 | 0.72 | 0.660586 |
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Target: 5'- uUgCAGUCAGGAGaACCGguCcgCGCCCg -3' miRNA: 3'- uAgGUUAGUCCUCaUGGC--GuaGUGGG- -5' |
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| 27312 | 3' | -52.5 | NC_005856.1 | + | 94290 | 1.11 | 0.002509 |
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Target: 5'- uAUCCAAUCAGGAGUACCGCAUCACCCa -3' miRNA: 3'- -UAGGUUAGUCCUCAUGGCGUAGUGGG- -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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