miRNA: 3'- ccAGCUAC-----------UC-CAGCCG---CGGGCGCGAC- -5'
miRNA: 3'- -CCAGCu-AC-----------UCCaGcCGCGGGCGCGAC- -5'
miRNA: 3'- cCAGCU------ACUCCAGC-CGC-GGgCGcGAC- -5'
miRNA: 3'- -CCaGCUACUCCagc-CGCGGg--CGCGAC- -5'
Results 21 - 24 of 24 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 | |||||||
| 26753 | 3' | -60.5 | NC_005808.1 | + | 15020 | 0.66 | 0.369955 |
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Target: 5'- -cUCGAUGguguccgcguuGGuGUUGGCgauGCCCGCGUUGa -3' miRNA: 3'- ccAGCUAC-----------UC-CAGCCG---CGGGCGCGAC- -5' |
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| 26753 | 3' | -60.5 | NC_005808.1 | + | 11488 | 0.66 | 0.369955 |
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Target: 5'- uGGUCGccUGcgacaccgcaaAGGgCaGCGCCUGCGCUGg -3' miRNA: 3'- -CCAGCu-AC-----------UCCaGcCGCGGGCGCGAC- -5' |
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| 26753 | 3' | -60.5 | NC_005808.1 | + | 25286 | 0.66 | 0.369955 |
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Target: 5'- cGUCGAaugccuUGAGGUCGuGCGgCCgGCcCUGc -3' miRNA: 3'- cCAGCU------ACUCCAGC-CGC-GGgCGcGAC- -5' |
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| 26753 | 3' | -60.5 | NC_005808.1 | + | 11254 | 0.66 | 0.387223 |
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Target: 5'- uGG-CGAUGAGGguuuGCGCUgcgGCGCUGg -3' miRNA: 3'- -CCaGCUACUCCagc-CGCGGg--CGCGAC- -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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