miRNA: 3'- -CUAGCACCG-GC--------UCUAGaGGCaCUCGU- -5'
miRNA: 3'- cUAGCA----CCGGCuCuaGAGGCa---CUCGU- -5'
miRNA: 3'- cuaGCaCCGGCUC-UAGAGGCaCUCGU- -5'
miRNA: 3'- cuAGCACCGGCUCuagaGGcACUCGU- -5'
miRNA: 3'- -CUAGCACCGGCUCUAGAGGCACUCGU- -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
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| Predicted miRNA align pattern | |||||||
| 25935 | 3' | -55.8 | NC_005337.1 | + | 106636 | 0.7 | 0.69997 |
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Target: 5'- aGAUCGUGGCgCGcuccgccaAGAUC-CCG-GAGCGc -3' miRNA: 3'- -CUAGCACCG-GC--------UCUAGaGGCaCUCGU- -5' |
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| 25935 | 3' | -55.8 | NC_005337.1 | + | 93832 | 0.7 | 0.679541 |
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Target: 5'- cGUCGUcaagGGCCGuGcgCUCCGgaagGAGCGc -3' miRNA: 3'- cUAGCA----CCGGCuCuaGAGGCa---CUCGU- -5' |
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| 25935 | 3' | -55.8 | NC_005337.1 | + | 5449 | 0.7 | 0.658953 |
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Target: 5'- --aCGcGGUCGAGcAUCUCCGgGGGCAg -3' miRNA: 3'- cuaGCaCCGGCUC-UAGAGGCaCUCGU- -5' |
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| 25935 | 3' | -55.8 | NC_005337.1 | + | 68172 | 0.72 | 0.576381 |
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Target: 5'- -uUCGUGGCCGAGuacgCCcUGAGCGc -3' miRNA: 3'- cuAGCACCGGCUCuagaGGcACUCGU- -5' |
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| 25935 | 3' | -55.8 | NC_005337.1 | + | 115117 | 1.08 | 0.003001 |
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Target: 5'- uGAUCGUGGCCGAGAUCUCCGUGAGCAu -3' miRNA: 3'- -CUAGCACCGGCUCUAGAGGCACUCGU- -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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