miRNA: 3'- -GUCA--AGUgGCCUGAACUCaACGUCGc -5'
miRNA: 3'- gUCAAGUGGCcuGAACUCa-ACgUCGC- -5'
miRNA: 3'- gucaAGugGCC---------UGAACUCAACGUCGc -5'
miRNA: 3'- -GUCAAGuGGCCugAACUCa-----ACgUCGc -5'
miRNA: 3'- -GUCAAGUGGCCUGAACUCAACGUCGC- -5'
Results 1 - 5 of 5 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 | |||||||
| 20809 | 3' | -51.9 | NC_004689.1 | + | 37281 | 0.66 | 0.925151 |
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Target: 5'- gCGGUcuUCG-CGGGCUUGGG-UGCGGUc -3' miRNA: 3'- -GUCA--AGUgGCCUGAACUCaACGUCGc -5' |
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| 20809 | 3' | -51.9 | NC_004689.1 | + | 52298 | 0.66 | 0.919141 |
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Target: 5'- aAGUUCACCGu-CUUGGGcgUG-AGCGa -3' miRNA: 3'- gUCAAGUGGCcuGAACUCa-ACgUCGC- -5' |
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| 20809 | 3' | -51.9 | NC_004689.1 | + | 5672 | 0.66 | 0.912849 |
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Target: 5'- ---gUUugCGGcgagaagcgGCUUGAGUUGCAGUu -3' miRNA: 3'- gucaAGugGCC---------UGAACUCAACGUCGc -5' |
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| 20809 | 3' | -51.9 | NC_004689.1 | + | 5427 | 0.67 | 0.869338 |
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Target: 5'- uCAGUUCcCCGGugUUGGGaucgacUGgGGCa -3' miRNA: 3'- -GUCAAGuGGCCugAACUCa-----ACgUCGc -5' |
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| 20809 | 3' | -51.9 | NC_004689.1 | + | 39227 | 1.08 | 0.003335 |
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Target: 5'- uCAGUUCACCGGACUUGAGUUGCAGCGc -3' miRNA: 3'- -GUCAAGUGGCCUGAACUCAACGUCGC- -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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