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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 23203 | 5' | -56.6 | NC_005259.1 | + | 54483 | 0.75 | 0.226638 |
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Target: 5'- -cAUCCCGCCGAgggucaUCGgCGGGCauGGCGGc -3' miRNA: 3'- uuUAGGGCGGUU------AGCgGCCUG--UCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 55088 | 0.68 | 0.59508 |
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Target: 5'- --cUUCUGCUGAUCGCUGccGAUGGCGGc -3' miRNA: 3'- uuuAGGGCGGUUAGCGGC--CUGUCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 56235 | 0.66 | 0.691594 |
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Target: 5'- -cGUCgCCGCCGAccaCGuuGGGauCGGCGGc -3' miRNA: 3'- uuUAG-GGCGGUUa--GCggCCU--GUCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 57676 | 0.68 | 0.577991 |
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Target: 5'- -uGUCCgGCCAAUCgaccguggccagguuGCCGGGCuugcccgacucGCGGg -3' miRNA: 3'- uuUAGGgCGGUUAG---------------CGGCCUGu----------CGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 60372 | 1.07 | 0.001289 |
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Target: 5'- gAAAUCCCGCCAAUCGCCGGACAGCGGc -3' miRNA: 3'- -UUUAGGGCGGUUAGCGGCCUGUCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 62725 | 0.69 | 0.542078 |
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Target: 5'- gGGAUCUCGC---UCGaCCGGAcCGGCGGc -3' miRNA: 3'- -UUUAGGGCGguuAGC-GGCCU-GUCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 66261 | 0.71 | 0.386841 |
|
Target: 5'- ----gCgGCCcg-CGCCGGGCGGCGGc -3' miRNA: 3'- uuuagGgCGGuuaGCGGCCUGUCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 66632 | 0.66 | 0.723136 |
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Target: 5'- -cGUCCCugGCCAccgcucggauuGcUGCCGGuCGGCGGu -3' miRNA: 3'- uuUAGGG--CGGU-----------UaGCGGCCuGUCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 67187 | 0.67 | 0.638062 |
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Target: 5'- uGAUgCCCGCCucgucucccUCGCCGcuguCGGCGGg -3' miRNA: 3'- uUUA-GGGCGGuu-------AGCGGCcu--GUCGCC- -5' |
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| 23203 | 5' | -56.6 | NC_005259.1 | + | 68537 | 0.66 | 0.702177 |
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Target: 5'- ---gCCCGCCAcgCGUCG-ACAuCGGg -3' miRNA: 3'- uuuaGGGCGGUuaGCGGCcUGUcGCC- -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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