miRNA: 3'- cCCCGaCUUUGCGCuu------UGUAGGUGCc -5'
miRNA: 3'- ccCCG---ACUUUGCGCUUU-GUAGGUGCC- -5'
miRNA: 3'- -CCCCGacuUugCGCUU--UGUAGGUGCc -5'
miRNA: 3'- -CCCCGACUUUGCGCUUUGUAGGUGCC- -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 | |||||||
| 232 | 3' | -51.1 | AC_000008.1 | + | 25258 | 0.74 | 0.423407 |
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Target: 5'- aGGGC-GAGGCGCGccgcgacuACGUCCGCGa -3' miRNA: 3'- cCCCGaCUUUGCGCuu------UGUAGGUGCc -5' |
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| 232 | 3' | -51.1 | AC_000008.1 | + | 30269 | 0.74 | 0.423407 |
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Target: 5'- -uGGCucgUGGAAUGCGAGAcCGUCUGCGGg -3' miRNA: 3'- ccCCG---ACUUUGCGCUUU-GUAGGUGCC- -5' |
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| 232 | 3' | -51.1 | AC_000008.1 | + | 18361 | 0.74 | 0.403801 |
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Target: 5'- aGGGGC---GugGCGAAaaGCGUCCGCGc -3' miRNA: 3'- -CCCCGacuUugCGCUU--UGUAGGUGCc -5' |
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| 232 | 3' | -51.1 | AC_000008.1 | + | 18547 | 1.14 | 0.000815 |
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Target: 5'- gGGGGCUGAAACGCGAAACAUCCACGGg -3' miRNA: 3'- -CCCCGACUUUGCGCUUUGUAGGUGCC- -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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