miRNA: 3'- gUCUAGGGca---AGCUACUGg----CGUUCGu -5'
miRNA: 3'- gUCUAGGGCA-----AGCUA---------------CUGGCGuUCGU- -5'
miRNA: 3'- -GUCUAGG-Gc------AAGCUACUGGCGUUCgU- -5'
miRNA: 3'- -GUCUaGGGcAAGCUACUGGC-GUUCGu -5'
miRNA: 3'- guCUAGgGCaaGCuaCUGGCGuUCGU- -5'
Results 21 - 25 of 25 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 | |||||||
| 7224 | 3' | -53 | NC_001900.1 | + | 40397 | 0.72 | 0.462135 |
|
Target: 5'- gGGAUCCCagaugUCGAUGACgaacaGCAGGCc -3' miRNA: 3'- gUCUAGGGca---AGCUACUGg----CGUUCGu -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 44372 | 0.69 | 0.641672 |
|
Target: 5'- aGGAUCCCGUcgaguUCGAUuucgaaguacagcucGAUCGCuGGCGu -3' miRNA: 3'- gUCUAGGGCA-----AGCUA---------------CUGGCGuUCGU- -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 45900 | 0.71 | 0.525576 |
|
Target: 5'- uCGGGUCCgCucaagacUUCGAUGGCCGCGAGgAu -3' miRNA: 3'- -GUCUAGG-Gc------AAGCUACUGGCGUUCgU- -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 47448 | 0.66 | 0.809336 |
|
Target: 5'- cUAGAaCCC-UUCGGUGGCUGuCAAGUc -3' miRNA: 3'- -GUCUaGGGcAAGCUACUGGC-GUUCGu -5' |
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| 7224 | 3' | -53 | NC_001900.1 | + | 47705 | 0.66 | 0.809336 |
|
Target: 5'- -uGGUCgCGggCGgcGACCGCcAGCGc -3' miRNA: 3'- guCUAGgGCaaGCuaCUGGCGuUCGU- -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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