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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 2464 | 3' | -61.1 | NC_001436.1 | + | 8032 | 1.11 | 1e-05 |
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Target: 5'- uCUCCCCCCGGAGGACAGCUCAGCACCa -3' miRNA: 3'- -GAGGGGGGCCUCCUGUCGAGUCGUGG- -5' |
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| 2464 | 3' | -61.1 | NC_001436.1 | + | 6727 | 0.73 | 0.023472 |
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Target: 5'- uUCCCCCCuGGAGGGCcccGUcgCAGCcgGCCg -3' miRNA: 3'- gAGGGGGG-CCUCCUGu--CGa-GUCG--UGG- -5' |
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| 2464 | 3' | -61.1 | NC_001436.1 | + | 3243 | 0.69 | 0.046507 |
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Target: 5'- gUgCCCCUGG-GGGCAGCuacuugccUCAGCugUg -3' miRNA: 3'- gAgGGGGGCCuCCUGUCG--------AGUCGugG- -5' |
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| 2464 | 3' | -61.1 | NC_001436.1 | + | 7025 | 0.68 | 0.058284 |
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Target: 5'- -gCCCCaucuCUGGGGGACuauGUUCGGC-CCg -3' miRNA: 3'- gaGGGG----GGCCUCCUGu--CGAGUCGuGG- -5' |
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| 2464 | 3' | -61.1 | NC_001436.1 | + | 491 | 0.67 | 0.068417 |
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Target: 5'- -gCCgCCCCGGGGGcugGCcGCUCAuCACUg -3' miRNA: 3'- gaGG-GGGGCCUCC---UGuCGAGUcGUGG- -5' |
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| 2464 | 3' | -61.1 | NC_001436.1 | + | 7460 | 0.66 | 0.088236 |
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Target: 5'- -gCCaCCCCGGc---CAGCUCGGgGCCu -3' miRNA: 3'- gaGG-GGGGCCuccuGUCGAGUCgUGG- -5' |
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| 2464 | 3' | -61.1 | NC_001436.1 | + | 7963 | 0.67 | 0.072928 |
|
Target: 5'- --gCCCCCGGGGGAUauuuggGGCUCAuGguCa -3' miRNA: 3'- gagGGGGGCCUCCUG------UCGAGU-CguGg -5' |
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| 2464 | 3' | -61.1 | NC_001436.1 | + | 1227 | 0.72 | 0.028559 |
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Target: 5'- -aCUCCCUGGcAGGGCGGCgaaggCGGCgaGCCa -3' miRNA: 3'- gaGGGGGGCC-UCCUGUCGa----GUCG--UGG- -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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