miRNA: 3'- uCU--UGAGGCUGa-----CAa--GUGG--UCUUUGG- -5'
miRNA: 3'- -UCuUGAGg----CUGACaAGuGGUCUUUGG- -5'
miRNA: 3'- ucuUGAGGCugACaaGUGGUC-UUUGg -5'
miRNA: 3'- -UCUUGAGG-----CugACAAGuG-GUCuuUGg -5'
miRNA: 3'- -UCUUG-AGG-CUGacaAGUG--GUCUUUGG- -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
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| Predicted miRNA align pattern | |||||||
| 13310 | 5' | -48.4 | NC_003409.1 | + | 133309 | 0.66 | 0.999186 |
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Target: 5'- cGAcaGCUCCGACaaugcgGUgcgCAUCuuGGAGACCc -3' miRNA: 3'- uCU--UGAGGCUGa-----CAa--GUGG--UCUUUGG- -5' |
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| 13310 | 5' | -48.4 | NC_003409.1 | + | 85585 | 0.66 | 0.999186 |
|
Target: 5'- aAGcACUUuuuuaGACUG-UC-CCAGAAACCa -3' miRNA: 3'- -UCuUGAGg----CUGACaAGuGGUCUUUGG- -5' |
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| 13310 | 5' | -48.4 | NC_003409.1 | + | 88258 | 0.66 | 0.999341 |
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Target: 5'- --uGCUCCGugUGgaUACCAGuGAAUg -3' miRNA: 3'- ucuUGAGGCugACaaGUGGUC-UUUGg -5' |
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| 13310 | 5' | -48.4 | NC_003409.1 | + | 39585 | 0.66 | 0.999341 |
|
Target: 5'- aAGAACUCCcgcucGugUGUUUuCgCAGggGCa -3' miRNA: 3'- -UCUUGAGG-----CugACAAGuG-GUCuuUGg -5' |
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| 13310 | 5' | -48.4 | NC_003409.1 | + | 73936 | 0.66 | 0.999341 |
|
Target: 5'- aAGAGCuUCCgGGCgg-UCAUgaCGGAGACCa -3' miRNA: 3'- -UCUUG-AGG-CUGacaAGUG--GUCUUUGG- -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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