miRNA: 3'- -GUCCaguCAGGC--CCgCCCGUCCGCgA- -5'
miRNA: 3'- guCCAgUC-AGGCCCGCCCGUCCGC-Ga -5'
miRNA: 3'- gUCCAG-----UCAG-GCCCgCCCGu--CCGCGa -5'
miRNA: 3'- -GUCCa--GUCa--GgCCCGCC--CGUCCGCGa -5'
miRNA: 3'- -GUCCaGUCaGGCCCgC-CCGUCCgCGa -5'
Results 41 - 45 of 45 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 5540 | 3' | -64.1 | NC_001806.1 | + | 148191 | 0.67 | 0.476571 |
|
Target: 5'- gCGGGgc-GUCCGgcGGgGGGCGGGCGgUa -3' miRNA: 3'- -GUCCaguCAGGC--CCgCCCGUCCGCgA- -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 148395 | 0.74 | 0.178159 |
|
Target: 5'- -uGGUgGGcUCCGGGUGGGUGGGCGaCa -3' miRNA: 3'- guCCAgUC-AGGCCCGCCCGUCCGC-Ga -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 151102 | 0.68 | 0.432743 |
|
Target: 5'- gGGGUCgcgggGGUCgCGGG-GGGCuccGGCGCc -3' miRNA: 3'- gUCCAG-----UCAG-GCCCgCCCGu--CCGCGa -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 151444 | 0.7 | 0.323665 |
|
Target: 5'- gCGGGgggCGGcggCgGGGCGGccGCGGGCGCg -3' miRNA: 3'- -GUCCa--GUCa--GgCCCGCC--CGUCCGCGa -5' |
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| 5540 | 3' | -64.1 | NC_001806.1 | + | 151549 | 0.68 | 0.432743 |
|
Target: 5'- cCGGG-CGG-CCGGGgGcGGCGGGgGCc -3' miRNA: 3'- -GUCCaGUCaGGCCCgC-CCGUCCgCGa -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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