miRNA: 3'- cAGUGg-GAGC-CCCAGCUGCGCguGCu -5'
miRNA: 3'- caGUGGGAGCCCCa-----GCUGC---GCGUGCU- -5'
miRNA: 3'- caGUgGGAGCCCCaGCU----------GCGCGUGCU- -5'
miRNA: 3'- caGUGGGa---GCCCCA--GC-UGCGCGUGcu -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 |
| Predicted miRNA align pattern | |||||||
| 23245 | 3' | -60.3 | NC_005259.1 | + | 16778 | 0.74 | 0.183239 |
|
Target: 5'- aUCACgaCUCGuGGGUCGACGCGguCGc -3' miRNA: 3'- cAGUGg-GAGC-CCCAGCUGCGCguGCu -5' |
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| 23245 | 3' | -60.3 | NC_005259.1 | + | 15574 | 0.77 | 0.114606 |
|
Target: 5'- -cCACCCUCGGGGccagcgCGACGggcCGCAUGAg -3' miRNA: 3'- caGUGGGAGCCCCa-----GCUGC---GCGUGCU- -5' |
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| 23245 | 3' | -60.3 | NC_005259.1 | + | 6538 | 0.66 | 0.504224 |
|
Target: 5'- -cCGgCCUCGGGG-CGAgcggugaagcUGUGCGCGGc -3' miRNA: 3'- caGUgGGAGCCCCaGCU----------GCGCGUGCU- -5' |
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| 23245 | 3' | -60.3 | NC_005259.1 | + | 6340 | 0.66 | 0.514092 |
|
Target: 5'- -aCACCCacgaCGGGGUgcCGuACGUGCGCa- -3' miRNA: 3'- caGUGGGa---GCCCCA--GC-UGCGCGUGcu -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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