miRNA: 3'- gUGCCGaaaGGCGU-GG---AACaGAAGCU- -5'
miRNA: 3'- gUGCCGAAAGGCG--------------UGGaa---CAGAAgCU- -5'
miRNA: 3'- -GUGCCGAAAgGCGUGGa-ACAgAAGcu -5'
miRNA: 3'- gUGCCGaaaGGC-GUGGAACAGaaGCU- -5'
miRNA: 3'- -GUGCCGAAAGGCGUGGAACAGAAGCU- -5'
Results 1 - 5 of 5 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 | |||||||
| 28811 | 3' | -52.2 | NC_006146.1 | + | 151465 | 0.68 | 0.962363 |
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Target: 5'- aGCGGCgcgCCGCGuCCacgUUGgCUUCGAa -3' miRNA: 3'- gUGCCGaaaGGCGU-GG---AACaGAAGCU- -5' |
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| 28811 | 3' | -52.2 | NC_006146.1 | + | 88669 | 0.69 | 0.930532 |
|
Target: 5'- uGCGGCUUUCCGUaauucggguauggaGCCaguggGUCUUgGGa -3' miRNA: 3'- gUGCCGAAAGGCG--------------UGGaa---CAGAAgCU- -5' |
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| 28811 | 3' | -52.2 | NC_006146.1 | + | 82261 | 0.7 | 0.921249 |
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Target: 5'- cCACGGCUUUgUGUACCagUGUgUUCa- -3' miRNA: 3'- -GUGCCGAAAgGCGUGGa-ACAgAAGcu -5' |
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| 28811 | 3' | -52.2 | NC_006146.1 | + | 110232 | 0.71 | 0.882826 |
|
Target: 5'- gACGGCag-CCGcCACCUUGUCa-CGAa -3' miRNA: 3'- gUGCCGaaaGGC-GUGGAACAGaaGCU- -5' |
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| 28811 | 3' | -52.2 | NC_006146.1 | + | 100167 | 1.09 | 0.007385 |
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Target: 5'- cCACGGCUUUCCGCACCUUGUCUUCGAu -3' miRNA: 3'- -GUGCCGAAAGGCGUGGAACAGAAGCU- -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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