miRNA: 3'- -CGG---UCGCCGa-CGC---GGACGUGG---GGUUG- -5'
miRNA: 3'- -CGGUCGCCGacGCGGACGUGGGgUUG- -5'
miRNA: 3'- cgGUCG-CCGACGCGGACGUGgGGUUg -5'
miRNA: 3'- cgGUCGcCGaCGCGGACg-UGGGGUUG- -5'
miRNA: 3'- -CGGUCGCCGACGCGGACGUGGGGUUG- -5'
Results 1 - 5 of 5 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 | |||||||
| 32311 | 5' | -61.9 | NC_007024.1 | + | 55209 | 0.67 | 0.314929 |
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Target: 5'- cGCCaucGGCGGCcgGCGgguUCUGCACUucaCCGGCu -3' miRNA: 3'- -CGG---UCGCCGa-CGC---GGACGUGG---GGUUG- -5' |
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| 32311 | 5' | -61.9 | NC_007024.1 | + | 9734 | 0.7 | 0.176324 |
|
Target: 5'- cGUCGGCGGUcuCGCCUGCGUCCgAACc -3' miRNA: 3'- -CGGUCGCCGacGCGGACGUGGGgUUG- -5' |
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| 32311 | 5' | -61.9 | NC_007024.1 | + | 25719 | 0.73 | 0.105717 |
|
Target: 5'- -aCAGCuGGCUGCGCUUGCGCaCCGGu -3' miRNA: 3'- cgGUCG-CCGACGCGGACGUGgGGUUg -5' |
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| 32311 | 5' | -61.9 | NC_007024.1 | + | 15974 | 0.75 | 0.080181 |
|
Target: 5'- -aCAGCaGCgGCGCCUGaaGCCCCAACg -3' miRNA: 3'- cgGUCGcCGaCGCGGACg-UGGGGUUG- -5' |
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| 32311 | 5' | -61.9 | NC_007024.1 | + | 17950 | 1.1 | 0.000167 |
|
Target: 5'- cGCCAGCGGCUGCGCCUGCACCCCAACc -3' miRNA: 3'- -CGGUCGCCGACGCGGACGUGGGGUUG- -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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