miRNA: 3'- -GCUUUU--------AUAGCaGUGGCAGa------GAUAGc -5'
miRNA: 3'- gcUUUUAU--AGCAGUGGCA--------GAGA-UAGC- -5'
miRNA: 3'- -GCUUUUau--AGCAGUGGCAGAGauagc -5'
miRNA: 3'- -GCUuuu----AUAGCAGUGGcAGAGAUAGc -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 | |||||||
| 8563 | 3' | -44.6 | NC_002169.1 | + | 135384 | 0.67 | 0.999993 |
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Target: 5'- aCGAAGAauuggguuUGUCGcCGCCGUCgucgccgUUGUCa -3' miRNA: 3'- -GCUUUU--------AUAGCaGUGGCAGa------GAUAGc -5' |
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| 8563 | 3' | -44.6 | NC_002169.1 | + | 128840 | 0.67 | 0.999995 |
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Target: 5'- -aAAGAUAacUCGUCGCCGUugacguucCUCUcGUCGu -3' miRNA: 3'- gcUUUUAU--AGCAGUGGCA--------GAGA-UAGC- -5' |
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| 8563 | 3' | -44.6 | NC_002169.1 | + | 129269 | 0.66 | 0.999998 |
|
Target: 5'- uCGAAGAauuuUUGUCGCCGUCUUc---- -3' miRNA: 3'- -GCUUUUau--AGCAGUGGCAGAGauagc -5' |
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| 8563 | 3' | -44.6 | NC_002169.1 | + | 42112 | 0.66 | 0.999998 |
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Target: 5'- gCGAuaaucguUGUCGUCGCCaUUUCUAUUu -3' miRNA: 3'- -GCUuuu----AUAGCAGUGGcAGAGAUAGc -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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