miRNA: 3'- gggaCUGCCaGCCAC----UUGUCGUCuGC- -5'
miRNA: 3'- -GGGAcUGCCAGCcACUU-GUCG-UCUGC- -5'
miRNA: 3'- -GGgACuGCCAGC-CACU------------UGUCGUCUGc -5'
miRNA: 3'- -GGGACUGCCAGCCACUUGUCGUCUGC- -5'
Results 1 - 4 of 4 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 | |||||||
| 12151 | 5' | -54.9 | NC_003309.1 | + | 5058 | 0.66 | 0.766282 |
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Target: 5'- ---cGGCGGcCGGUGccgcGACGGCGGuCGg -3' miRNA: 3'- gggaCUGCCaGCCAC----UUGUCGUCuGC- -5' |
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| 12151 | 5' | -54.9 | NC_003309.1 | + | 16692 | 0.68 | 0.616891 |
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Target: 5'- gCCUUcGCGGUCGaUGAAaCGGCgAGACGa -3' miRNA: 3'- -GGGAcUGCCAGCcACUU-GUCG-UCUGC- -5' |
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| 12151 | 5' | -54.9 | NC_003309.1 | + | 40219 | 0.71 | 0.449405 |
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Target: 5'- aCCgUGuCGGUCGaGUGGcucgaaaacgcaGCAGCGGACc -3' miRNA: 3'- -GGgACuGCCAGC-CACU------------UGUCGUCUGc -5' |
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| 12151 | 5' | -54.9 | NC_003309.1 | + | 32537 | 1.12 | 0.000821 |
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Target: 5'- aCCCUGACGGUCGGUGAACAGCAGACGa -3' miRNA: 3'- -GGGACUGCCAGCCACUUGUCGUCUGC- -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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