miRNA: 3'- cUUCaCCCAAGu----------CCAGGGGCGCCGGG- -5'
miRNA: 3'- cUUCaCCCAa-GUC-CA-GGGGCgCCGGG- -5'
miRNA: 3'- -CUUCAC---CCAa--GUCCa-GGGGCGCCGGG- -5'
miRNA: 3'- cuucACCCa--AGUCCaGGGGCGCC-GGG- -5'
miRNA: 3'- -CUUCACCCAAGUCCAGGGGCGCCGGG- -5'
Results 21 - 25 of 25 are showing below:
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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 | |||||||
| 27079 | 5' | -60 | NC_005832.1 | + | 94121 | 0.71 | 0.394121 |
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Target: 5'- uAGG-GGGUUCugcuuggccacGGUCUCUGCGGCCUu -3' miRNA: 3'- cUUCaCCCAAGu----------CCAGGGGCGCCGGG- -5' |
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| 27079 | 5' | -60 | NC_005832.1 | + | 80832 | 0.71 | 0.385783 |
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Target: 5'- cAGG-GGGUcgCGGuGUcCCCCGgGGCCCu -3' miRNA: 3'- cUUCaCCCAa-GUC-CA-GGGGCgCCGGG- -5' |
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| 27079 | 5' | -60 | NC_005832.1 | + | 5766 | 0.72 | 0.330766 |
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Target: 5'- cGAGGUGucuGGUggaCGGGgaUCCCGUGGCCCu -3' miRNA: 3'- -CUUCAC---CCAa--GUCCa-GGGGCGCCGGG- -5' |
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| 27079 | 5' | -60 | NC_005832.1 | + | 72780 | 0.76 | 0.19633 |
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Target: 5'- ---uUGGGccgUCGGG-CCCCGCGGgCCCa -3' miRNA: 3'- cuucACCCa--AGUCCaGGGGCGCC-GGG- -5' |
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| 27079 | 5' | -60 | NC_005832.1 | + | 50509 | 1.1 | 0.000675 |
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Target: 5'- uGAAGUGGGUUCAGGUCCCCGCGGCCCu -3' miRNA: 3'- -CUUCACCCAAGUCCAGGGGCGCCGGG- -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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