miRNA: 3'- aGGCU-----------UUUCGUGGCUa--CUUG--CUGCUg -5'
miRNA: 3'- aGGCUu---UUCGUGGcUACUUGCUGCUG- -5'
miRNA: 3'- -AGGCUuuUCGUGGcuACUUGCUGCUg -5'
miRNA: 3'- aGGCUU---UUCGUgg-CUACU------------UGCUGCUG- -5'
Results 101 - 104 of 104 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 | |||||||
| 16505 | 5' | -49.5 | NC_004084.1 | + | 1745 | 0.67 | 0.936981 |
|
Target: 5'- aCCGAgacccgccgccGAAGUACCGAgcgGGGCcuGGCGAg -3' miRNA: 3'- aGGCU-----------UUUCGUGGCUa--CUUG--CUGCUg -5' |
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| 16505 | 5' | -49.5 | NC_004084.1 | + | 1670 | 0.69 | 0.868719 |
|
Target: 5'- cCCGAcgucGAGUGCUuGUGGACGAUGAUg -3' miRNA: 3'- aGGCUu---UUCGUGGcUACUUGCUGCUG- -5' |
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| 16505 | 5' | -49.5 | NC_004084.1 | + | 1051 | 0.67 | 0.951801 |
|
Target: 5'- uUCCGA--GGCAUC--UGGGCGAUGAa -3' miRNA: 3'- -AGGCUuuUCGUGGcuACUUGCUGCUg -5' |
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| 16505 | 5' | -49.5 | NC_004084.1 | + | 403 | 0.67 | 0.931459 |
|
Target: 5'- aCCGAGagcGAGCAggaGAUGAucgagagcgucuACGGCGACc -3' miRNA: 3'- aGGCUU---UUCGUgg-CUACU------------UGCUGCUG- -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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