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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28133 | 5' | -55 | NC_005887.1 | + | 30865 | 0.66 | 0.685312 |
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Target: 5'- uGCGCuGGuccUGAUg-CCAGAGCGCg -3' miRNA: 3'- cCGCGcCCuu-GCUAaaGGUCUCGCGg -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 14701 | 0.66 | 0.685312 |
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Target: 5'- cGuCGCGGcGGGCGGg--CCGG-GCGCg -3' miRNA: 3'- cC-GCGCC-CUUGCUaaaGGUCuCGCGg -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 41551 | 0.66 | 0.674281 |
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Target: 5'- cGGCGCGcacGCGAag-UCAGccAGCGCCg -3' miRNA: 3'- -CCGCGCccuUGCUaaaGGUC--UCGCGG- -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 8407 | 0.66 | 0.674281 |
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Target: 5'- aGGCGCGuGGGcCGAgcacgaCCAGGcuauCGCCg -3' miRNA: 3'- -CCGCGC-CCUuGCUaaa---GGUCUc---GCGG- -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 40972 | 0.67 | 0.629858 |
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Target: 5'- cGGCGCGGGccUGAUguacgugCCcGAGCucgaaGCCu -3' miRNA: 3'- -CCGCGCCCuuGCUAaa-----GGuCUCG-----CGG- -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 35126 | 0.67 | 0.618732 |
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Target: 5'- gGGCGCGGau-CGGaaUCC--GGCGCCa -3' miRNA: 3'- -CCGCGCCcuuGCUaaAGGucUCGCGG- -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 4773 | 0.67 | 0.607618 |
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Target: 5'- aGCGCGGGAAgcUGAcg-CCAGccGGCgagGCCg -3' miRNA: 3'- cCGCGCCCUU--GCUaaaGGUC--UCG---CGG- -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 11055 | 0.67 | 0.596525 |
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Target: 5'- aGGCGUGGacACuGAUUUCC---GCGCCg -3' miRNA: 3'- -CCGCGCCcuUG-CUAAAGGucuCGCGG- -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 13182 | 0.67 | 0.596525 |
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Target: 5'- --aGCGGGAGCGGUcgagCAGGcCGCCg -3' miRNA: 3'- ccgCGCCCUUGCUAaag-GUCUcGCGG- -5' |
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| 28133 | 5' | -55 | NC_005887.1 | + | 13759 | 1.01 | 0.003362 |
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Target: 5'- uGGCGCGaGGACGAUUUCCAGAGCGCCg -3' miRNA: 3'- -CCGCGCcCUUGCUAAAGGUCUCGCGG- -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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