miRNA: 3'- uCCGUU--ACaCAUgACCCACGCGCUGc -5'
miRNA: 3'- -UCCGUUACACAuGACC-Ca--CGCGcugc -5'
miRNA: 3'- -UCCGuuA-CACa----UGACCCAC-GCgCUGC- -5'
miRNA: 3'- -UCCGUUACACAUGACCCACGCGCUGC- -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 | |||||||
| 333 | 3' | -54.7 | AC_000010.1 | + | 25043 | 0.67 | 0.53414 |
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Target: 5'- uGGCAGacUG-GUA-UGGGUGUGUGGCa -3' miRNA: 3'- uCCGUU--ACaCAUgACCCACGCGCUGc -5' |
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| 333 | 3' | -54.7 | AC_000010.1 | + | 33184 | 0.69 | 0.448707 |
|
Target: 5'- uGGGCAGUGUGUuCUGGaGgggGCGCc--- -3' miRNA: 3'- -UCCGUUACACAuGACC-Ca--CGCGcugc -5' |
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| 333 | 3' | -54.7 | AC_000010.1 | + | 23826 | 0.69 | 0.428533 |
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Target: 5'- gAGGUggUgGUGgcgggACUGGGUGgUGgGGCGg -3' miRNA: 3'- -UCCGuuA-CACa----UGACCCAC-GCgCUGC- -5' |
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| 333 | 3' | -54.7 | AC_000010.1 | + | 16116 | 1.08 | 0.000694 |
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Target: 5'- gAGGCAAUGUGUACUGGGUGCGCGACGc -3' miRNA: 3'- -UCCGUUACACAUGACCCACGCGCUGC- -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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