miRNA: 3'- gaaGUUGCCuu-UGC--------------CGCGGUCCGUUu -5'
miRNA: 3'- gaaGUugCCUuUGCC-GCGG------UCCGUUU- -5'
miRNA: 3'- gaaGuuGCCU-UUGCCGCGG--UCCGUUu -5'
miRNA: 3'- gaaGUugCCuuUGCCGCGGUc-CGUUU- -5'
miRNA: 3'- -GAAGUUGCCUUUGCCGCGGUCCGUUU- -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 |
| Predicted miRNA align pattern | |||||||
| 22921 | 3' | -53 | NC_005137.2 | + | 110719 | 0.69 | 0.861735 |
|
Target: 5'- --gCAACGGuguGCGcgcagagcgcuuguGCGCCGGGCGAu -3' miRNA: 3'- gaaGUUGCCuu-UGC--------------CGCGGUCCGUUu -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 106207 | 0.68 | 0.871887 |
|
Target: 5'- --aCGugGGAcGCGGuCGCCaagaacGGGCAAAa -3' miRNA: 3'- gaaGUugCCUuUGCC-GCGG------UCCGUUU- -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 46640 | 0.68 | 0.879427 |
|
Target: 5'- --aUggUGGAcAGCGGCGCUaaGGGCAGc -3' miRNA: 3'- gaaGuuGCCU-UUGCCGCGG--UCCGUUu -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 45676 | 0.68 | 0.886726 |
|
Target: 5'- --aCGugGGcgGCGGCGCCAacGCGGAu -3' miRNA: 3'- gaaGUugCCuuUGCCGCGGUc-CGUUU- -5' |
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| 22921 | 3' | -53 | NC_005137.2 | + | 19513 | 1.06 | 0.006453 |
|
Target: 5'- uCUUCAACGGAAACGGCGCCAGGCAAAc -3' miRNA: 3'- -GAAGUUGCCUUUGCCGCGGUCCGUUU- -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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