miRNA: 3'- -GCUA-CAU-GUCCCGCUGU-AACuaUCGG- -5'
miRNA: 3'- -GCUACau---GUCCCGCugua-ACUAUCGG- -5'
miRNA: 3'- gCUACaUGUc-CCGCug----UAACUAUCGG- -5'
miRNA: 3'- -GCUAC--AUGUCCCG-------CUGUAACua--UCGG- -5'
miRNA: 3'- -GCUACAUGUCCCGCUGUAACUAUCGG- -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 | |||||||
| 21838 | 3' | -49.3 | NC_004831.2 | + | 15568 | 0.66 | 0.920855 |
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Target: 5'- aUGAUaGUAcCGGGGUGGCAcUUGc-AGCCg -3' miRNA: 3'- -GCUA-CAU-GUCCCGCUGU-AACuaUCGG- -5' |
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| 21838 | 3' | -49.3 | NC_004831.2 | + | 37651 | 0.67 | 0.907538 |
|
Target: 5'- gCGAUGcagucUAGGGUGuuuggUGGUAGCCg -3' miRNA: 3'- -GCUACau---GUCCCGCugua-ACUAUCGG- -5' |
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| 21838 | 3' | -49.3 | NC_004831.2 | + | 27120 | 0.69 | 0.833206 |
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Target: 5'- aGAUGaGCAauGGCGucagcaGUUGAUAGCCa -3' miRNA: 3'- gCUACaUGUc-CCGCug----UAACUAUCGG- -5' |
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| 21838 | 3' | -49.3 | NC_004831.2 | + | 42961 | 0.69 | 0.802829 |
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Target: 5'- gCGAUGguUACAGGGCgcacuguGACAUUGcgugGGUCu -3' miRNA: 3'- -GCUAC--AUGUCCCG-------CUGUAACua--UCGG- -5' |
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| 21838 | 3' | -49.3 | NC_004831.2 | + | 22768 | 1.14 | 0.001545 |
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Target: 5'- aCGAUGUACAGGGCGACAUUGAUAGCCu -3' miRNA: 3'- -GCUACAUGUCCCGCUGUAACUAUCGG- -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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