miRNA: 3'- -GCGGUAGGGGCaCCUUcUGUCccCGC- -5'
miRNA: 3'- -GCGGUaGGGGCa-------CCuu-C-UGUCCCCGC- -5'
miRNA: 3'- -GC-GGUAGGGGCAC-CuuCugUC-CCCGc -5'
miRNA: 3'- gCGGua-GGGGc--ACC-UUCUG-----UCCCCGC- -5'
Results 41 - 44 of 44 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 3041 | 3' | -60.3 | NC_001493.1 | + | 9294 | 0.73 | 0.309943 |
|
Target: 5'- cCGCCAUCCCCG-GGAGcGCGGucGCGg -3' miRNA: 3'- -GCGGUAGGGGCaCCUUcUGUCccCGC- -5' |
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| 3041 | 3' | -60.3 | NC_001493.1 | + | 3620 | 0.67 | 0.666292 |
|
Target: 5'- cCGCCGcCCCCGcgaauaccGGuucGcACAGGGGCGc -3' miRNA: 3'- -GCGGUaGGGGCa-------CCuu-C-UGUCCCCGC- -5' |
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| 3041 | 3' | -60.3 | NC_001493.1 | + | 2682 | 0.68 | 0.557115 |
|
Target: 5'- uCGuCCGUCUUCGUGaGggGugGGaGGGCc -3' miRNA: 3'- -GC-GGUAGGGGCAC-CuuCugUC-CCCGc -5' |
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| 3041 | 3' | -60.3 | NC_001493.1 | + | 174 | 0.66 | 0.734698 |
|
Target: 5'- gGCCccgCCCCcuuUGGcGAGACcccaaGGGGGCGu -3' miRNA: 3'- gCGGua-GGGGc--ACC-UUCUG-----UCCCCGC- -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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