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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 | |||||||
| 31346 | 3' | -56.9 | NC_006623.1 | + | 145515 | 0.66 | 0.880542 |
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Target: 5'- ---uUGCGCGGGuugagcagcggUCCG-GCGGGAAg- -3' miRNA: 3'- ccauACGCGCCU-----------GGGCuCGCCCUUag -5' |
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| 31346 | 3' | -56.9 | NC_006623.1 | + | 116097 | 0.66 | 0.880542 |
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Target: 5'- ---uUGCGCGGGuugagcagcggUCCG-GCGGGAAg- -3' miRNA: 3'- ccauACGCGCCU-----------GGGCuCGCCCUUag -5' |
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| 31346 | 3' | -56.9 | NC_006623.1 | + | 114848 | 0.66 | 0.87345 |
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Target: 5'- cGGUAcaCGCGGuCCCGAauCGGGAggCg -3' miRNA: 3'- -CCAUacGCGCCuGGGCUc-GCCCUuaG- -5' |
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| 31346 | 3' | -56.9 | NC_006623.1 | + | 146763 | 0.66 | 0.87345 |
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Target: 5'- cGGUAcaCGCGGuCCCGAauCGGGAggCg -3' miRNA: 3'- -CCAUacGCGCCuGGGCUc-GCCCUuaG- -5' |
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| 31346 | 3' | -56.9 | NC_006623.1 | + | 123494 | 0.69 | 0.754934 |
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Target: 5'- --aGUGCGCGGACCgCGAGUGcgccccuccccGGGcUCu -3' miRNA: 3'- ccaUACGCGCCUGG-GCUCGC-----------CCUuAG- -5' |
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| 31346 | 3' | -56.9 | NC_006623.1 | + | 138118 | 0.69 | 0.754934 |
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Target: 5'- --aGUGCGCGGACCgCGAGUGcgccccuccccGGGcUCu -3' miRNA: 3'- ccaUACGCGCCUGG-GCUCGC-----------CCUuAG- -5' |
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| 31346 | 3' | -56.9 | NC_006623.1 | + | 115432 | 1.11 | 0.001956 |
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Target: 5'- aGGUAUGCGCGGACCCGAGCGGGAAUCc -3' miRNA: 3'- -CCAUACGCGCCUGGGCUCGCCCUUAG- -5' |
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| 31346 | 3' | -56.9 | NC_006623.1 | + | 146180 | 1.11 | 0.001956 |
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Target: 5'- aGGUAUGCGCGGACCCGAGCGGGAAUCc -3' miRNA: 3'- -CCAUACGCGCCUGGGCUCGCCCUUAG- -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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