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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 | |||||||
| 24311 | 5' | -56.8 | NC_005263.2 | + | 36307 | 0.66 | 0.595899 |
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Target: 5'- -cGCgaaGuGACGACCGGCGCGUUcgaGGAu -3' miRNA: 3'- uuCGagaC-CUGCUGGCUGUGCAG---CCU- -5' |
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| 24311 | 5' | -56.8 | NC_005263.2 | + | 34365 | 0.66 | 0.595899 |
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Target: 5'- cGGC-CUGGcCGccggcgguaacGCCGcgaGCACGUCGGAc -3' miRNA: 3'- uUCGaGACCuGC-----------UGGC---UGUGCAGCCU- -5' |
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| 24311 | 5' | -56.8 | NC_005263.2 | + | 28009 | 0.66 | 0.584962 |
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Target: 5'- cGGCgacgCUGGuCGACCaGACGCcauUCGGGu -3' miRNA: 3'- uUCGa---GACCuGCUGG-CUGUGc--AGCCU- -5' |
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| 24311 | 5' | -56.8 | NC_005263.2 | + | 4655 | 0.67 | 0.54169 |
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Target: 5'- uGGCgacGGGCaGGCCGGCGCG-CGGGu -3' miRNA: 3'- uUCGagaCCUG-CUGGCUGUGCaGCCU- -5' |
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| 24311 | 5' | -56.8 | NC_005263.2 | + | 41666 | 0.67 | 0.520446 |
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Target: 5'- -uGCUCUGG-CGGCaGAU-CGUCGGGc -3' miRNA: 3'- uuCGAGACCuGCUGgCUGuGCAGCCU- -5' |
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| 24311 | 5' | -56.8 | NC_005263.2 | + | 40137 | 0.68 | 0.449018 |
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Target: 5'- cAGCUCUGGGCG-CCG-CGUGUCGa- -3' miRNA: 3'- uUCGAGACCUGCuGGCuGUGCAGCcu -5' |
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| 24311 | 5' | -56.8 | NC_005263.2 | + | 23933 | 0.69 | 0.439254 |
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Target: 5'- -cGCUUUGG-CGGCUuGCGCGUCGuGAg -3' miRNA: 3'- uuCGAGACCuGCUGGcUGUGCAGC-CU- -5' |
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| 24311 | 5' | -56.8 | NC_005263.2 | + | 38865 | 1.06 | 0.000988 |
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Target: 5'- cAAGCUCUGGACGACCGACACGUCGGAc -3' miRNA: 3'- -UUCGAGACCUGCUGGCUGUGCAGCCU- -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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