miRNA: 3'- -GCGUAGUGu-----GU--------------UGuUCCGCCACCAAC- -5'
miRNA: 3'- gCGUAg---UgUGUUGUUCCGCCACCaac -5'
miRNA: 3'- -GCGUAGUGuGUUGU---UCCGCCaCCAac -5'
miRNA: 3'- gCGU---AGUGUGUUGuUCCGCCACcaac -5'
miRNA: 3'- -GCGUAGUGUGUUGUUCCGCCACCAAC- -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 | |||||||
| 28814 | 5' | -51.6 | NC_006146.1 | + | 99960 | 0.72 | 0.834331 |
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Target: 5'- cCGCAUCAUcugucuCAaagcccccugagccGCuGGGCGGUGGUUGu -3' miRNA: 3'- -GCGUAGUGu-----GU--------------UGuUCCGCCACCAAC- -5' |
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| 28814 | 5' | -51.6 | NC_006146.1 | + | 10880 | 0.73 | 0.819595 |
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Target: 5'- uGCAUggggAgACAGCGGGGCGGUGGg-- -3' miRNA: 3'- gCGUAg---UgUGUUGUUCCGCCACCaac -5' |
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| 28814 | 5' | -51.6 | NC_006146.1 | + | 43924 | 0.73 | 0.801597 |
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Target: 5'- cCGCGUCGCcCGGCAgucGGGCGG-GGUc- -3' miRNA: 3'- -GCGUAGUGuGUUGU---UCCGCCaCCAac -5' |
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| 28814 | 5' | -51.6 | NC_006146.1 | + | 44163 | 0.74 | 0.782952 |
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Target: 5'- gGCAcagUCGCACAACuGGGCGGUGc--- -3' miRNA: 3'- gCGU---AGUGUGUUGuUCCGCCACcaac -5' |
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| 28814 | 5' | -51.6 | NC_006146.1 | + | 97123 | 1.09 | 0.008401 |
|
Target: 5'- aCGCAUCACACAACAAGGCGGUGGUUGc -3' miRNA: 3'- -GCGUAGUGUGUUGUUCCGCCACCAAC- -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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