miRNA: 3'- -CAGCGUUUCC--UG-GCC-CUGGUG--GCAGc -5'
miRNA: 3'- -CAGCGU-----UUCCU-GGCC-CUGGUGGCaGC- -5'
miRNA: 3'- caGCGuuuCCU--GGCCCuGGUGGCAGC- -5'
miRNA: 3'- caGCGuuuCC-UGGCCCu----GGUGGCAGc -5'
miRNA: 3'- -CAgCGUUUCCU---GGcCCUGGUGGC-AGc -5'
Results 21 - 25 of 25 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 | |||||||
| 1612 | 3' | -57.4 | NC_001347.2 | + | 193097 | 0.72 | 0.679111 |
|
Target: 5'- cGUCGCAAGGGcuGCuCGGcGGCCACggCGUCu -3' miRNA: 3'- -CAGCGUUUCC--UG-GCC-CUGGUG--GCAGc -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 195658 | 0.74 | 0.571949 |
|
Target: 5'- uGUCGCAcgcccGAGGAuCUGGcGGCCGCCGgCGg -3' miRNA: 3'- -CAGCGU-----UUCCU-GGCC-CUGGUGGCaGC- -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 197127 | 0.7 | 0.790634 |
|
Target: 5'- -cCGCu--GGAacUCGGGcCCGCCGUCGu -3' miRNA: 3'- caGCGuuuCCU--GGCCCuGGUGGCAGC- -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 202777 | 0.67 | 0.914293 |
|
Target: 5'- -gCGCu--GGuACUGGGuuguuCCACCGUCa -3' miRNA: 3'- caGCGuuuCC-UGGCCCu----GGUGGCAGc -5' |
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| 1612 | 3' | -57.4 | NC_001347.2 | + | 208346 | 0.67 | 0.902669 |
|
Target: 5'- gGUgGCAGAGGGaggUCaGGGCCACCGaUCc -3' miRNA: 3'- -CAgCGUUUCCU---GGcCCUGGUGGC-AGc -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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