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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 | |||||||
| 23970 | 5' | -48.5 | NC_005262.1 | + | 61227 | 0.66 | 0.969489 |
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Target: 5'- cGCGAUcUGCUgc--GCCAgcgcGUCGUAc -3' miRNA: 3'- uCGCUGuACGAaaaaCGGUa---CAGCAU- -5' |
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| 23970 | 5' | -48.5 | NC_005262.1 | + | 14348 | 0.67 | 0.953772 |
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Target: 5'- uGCGACGUGCU---UGCgCGcGUCGa- -3' miRNA: 3'- uCGCUGUACGAaaaACG-GUaCAGCau -5' |
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| 23970 | 5' | -48.5 | NC_005262.1 | + | 52954 | 0.67 | 0.94912 |
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Target: 5'- uGCGuCGUGCgcUUUGCC-UGcUCGUAc -3' miRNA: 3'- uCGCuGUACGaaAAACGGuAC-AGCAU- -5' |
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| 23970 | 5' | -48.5 | NC_005262.1 | + | 28442 | 0.69 | 0.885745 |
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Target: 5'- cGCGcCGUGCUc---GCCGUGUCGc- -3' miRNA: 3'- uCGCuGUACGAaaaaCGGUACAGCau -5' |
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| 23970 | 5' | -48.5 | NC_005262.1 | + | 15279 | 0.71 | 0.824075 |
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Target: 5'- cGCGGCAUGgaUgcUGCCA-GUCGUc -3' miRNA: 3'- uCGCUGUACgaAaaACGGUaCAGCAu -5' |
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| 23970 | 5' | -48.5 | NC_005262.1 | + | 43912 | 0.71 | 0.804261 |
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Target: 5'- cGCGGCcgGCccgcgGCCGUGUCGc- -3' miRNA: 3'- uCGCUGuaCGaaaaaCGGUACAGCau -5' |
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| 23970 | 5' | -48.5 | NC_005262.1 | + | 51012 | 0.71 | 0.783638 |
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Target: 5'- aAGCGACcgGCgaccgcGCCGUGaUCGUGu -3' miRNA: 3'- -UCGCUGuaCGaaaaa-CGGUAC-AGCAU- -5' |
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| 23970 | 5' | -48.5 | NC_005262.1 | + | 162 | 1.07 | 0.006146 |
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Target: 5'- cAGCGACAUGCUUUUUGCCAUGUCGUAc -3' miRNA: 3'- -UCGCUGUACGAAAAACGGUACAGCAU- -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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