miRNA: 3'- -CAUGGAUU------UGUUGag---CaaCGACGUCg -5'
miRNA: 3'- cauGGAUU---UGUUGAGCaaCGACG--UCG- -5'
miRNA: 3'- -CAUGga--UUUGUUgaGCa---ACGACGUCG- -5'
miRNA: 3'- -CAUGGa---UUUGUUgaGCA----ACGACGUCg -5'
miRNA: 3'- caUGGauUUG---UUGAGCAACGa---CGUCG- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 638 | 5' | -47.1 | AC_000017.1 | + | 25402 | 0.66 | 0.964989 |
|
Target: 5'- aGUGCCUGGaggagcGCAACcugaaGgaGCUGCAGa -3' miRNA: 3'- -CAUGGAUU------UGUUGag---CaaCGACGUCg -5' |
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| 638 | 5' | -47.1 | AC_000017.1 | + | 25822 | 0.66 | 0.964989 |
|
Target: 5'- --cCCUGGucuGCAAUUCGcaGCUGCuuAGCg -3' miRNA: 3'- cauGGAUU---UGUUGAGCaaCGACG--UCG- -5' |
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| 638 | 5' | -47.1 | AC_000017.1 | + | 33244 | 0.67 | 0.936 |
|
Target: 5'- cGUGCaucaGGAUAGggCGguggUGCUGCAGCa -3' miRNA: 3'- -CAUGga--UUUGUUgaGCa---ACGACGUCG- -5' |
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| 638 | 5' | -47.1 | AC_000017.1 | + | 33429 | 0.66 | 0.960956 |
|
Target: 5'- uGUGCCcggaGGACAAggCGUcuuaUGCUGCGGg -3' miRNA: 3'- -CAUGGa---UUUGUUgaGCA----ACGACGUCg -5' |
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| 638 | 5' | -47.1 | AC_000017.1 | + | 34948 | 0.66 | 0.956612 |
|
Target: 5'- -aGCCccGAUguaAGCUUGUUGCauggGCGGCg -3' miRNA: 3'- caUGGauUUG---UUGAGCAACGa---CGUCG- -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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