miRNA: 3'- cGGUA-CGCA--AC-GCCCgUg---CGGUGUGC- -5'
miRNA: 3'- -CGGUacGCaacgCCCGUGCGGUGUgC- -5'
miRNA: 3'- -CGGUa--CGCa---ACGCCCGuGCGg--UGUGc -5'
miRNA: 3'- cGGUAC-GCA-----ACGCCCgUGCGGUGuGC- -5'
miRNA: 3'- -CGGUaCGCAaCGCCC-----------GUGCGGUGuGC- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 22726 | 5' | -57.9 | NC_005091.1 | + | 49297 | 0.67 | 0.52202 |
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Target: 5'- cCCAUcGCGUgcUGaCGGGgGagaaGCCGCACGu -3' miRNA: 3'- cGGUA-CGCA--AC-GCCCgUg---CGGUGUGC- -5' |
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| 22726 | 5' | -57.9 | NC_005091.1 | + | 19559 | 0.67 | 0.553356 |
|
Target: 5'- gGCCA--CGga--GGGCACGCCGCAgGc -3' miRNA: 3'- -CGGUacGCaacgCCCGUGCGGUGUgC- -5' |
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| 22726 | 5' | -57.9 | NC_005091.1 | + | 9723 | 0.66 | 0.574557 |
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Target: 5'- uGCCAgagGCGauucUGCGGGUuCGCaauGCGCa -3' miRNA: 3'- -CGGUa--CGCa---ACGCCCGuGCGg--UGUGc -5' |
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| 22726 | 5' | -57.9 | NC_005091.1 | + | 31725 | 0.66 | 0.595939 |
|
Target: 5'- aCCAUGcCGUacuggUGUGGG-ACGCCGC-CGc -3' miRNA: 3'- cGGUAC-GCA-----ACGCCCgUGCGGUGuGC- -5' |
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| 22726 | 5' | -57.9 | NC_005091.1 | + | 56334 | 0.66 | 0.606678 |
|
Target: 5'- gGCCG-GCGUcGUGGGgauucagaugaUACGCCGCuCGg -3' miRNA: 3'- -CGGUaCGCAaCGCCC-----------GUGCGGUGuGC- -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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