miRNA: 3'- caCAGGC-CA--CGGUGGC-CGGAC-GGCGu -5'
miRNA: 3'- cacagGCCACGGUggCCGGaCGGCGU- -5'
miRNA: 3'- cACaGGCCACgGUGGCCGgacGGCGU- -5'
miRNA: 3'- caCAG---GCCACGGUggCCGGac---GGCGU- -5'
miRNA: 3'- -CACaGGCCaCGGUGGC--CGGA-----CGGCGu -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 | |||||||
| 23381 | 5' | -63.6 | NC_005259.1 | + | 46917 | 0.7 | 0.200244 |
|
Target: 5'- -aGUCCGcGUgcGCCGCCGaGCUUGcCCGCc -3' miRNA: 3'- caCAGGC-CA--CGGUGGC-CGGAC-GGCGu -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 47954 | 0.67 | 0.316986 |
|
Target: 5'- ----gCGGUGCCGauGGCC-GCCGCGc -3' miRNA: 3'- cacagGCCACGGUggCCGGaCGGCGU- -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 51358 | 0.7 | 0.176459 |
|
Target: 5'- aUGcCCGGUGgCACCGGCacaCCGCGc -3' miRNA: 3'- cACaGGCCACgGUGGCCGgacGGCGU- -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 53625 | 0.66 | 0.363202 |
|
Target: 5'- -cGUCgagCGGUGCCGuuGGCCgcuucCUGCAc -3' miRNA: 3'- caCAG---GCCACGGUggCCGGac---GGCGU- -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 61949 | 0.7 | 0.185656 |
|
Target: 5'- gGUG-CCGGgGCCACCGcaGCCUcacgcGCCGCu -3' miRNA: 3'- -CACaGGCCaCGGUGGC--CGGA-----CGGCGu -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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