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miRNA: 3'- gUAACC-GGGUagGCCGGCU--------------GGUUAGG- -5'
miRNA: 3'- guaaCCGGGUaGGCCGGcUGGuua--GG- -5'
miRNA: 3'- guaaCCGGGU-------------AGG---CCGGCUGGUUa--GG- -5'
miRNA: 3'- guaACCGGGUA---------GGCCGG---CUGguUAGG- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 13340 | 5' | -55.8 | NC_003409.1 | + | 39963 | 0.66 | 0.889157 |
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Target: 5'- gAUUGGaCUCAggCGGCCGAgacucggagaaagcCCGGUCUg -3' miRNA: 3'- gUAACC-GGGUagGCCGGCU--------------GGUUAGG- -5' |
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| 13340 | 5' | -55.8 | NC_003409.1 | + | 35410 | 0.66 | 0.891192 |
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Target: 5'- ---gGGCCCAcCUGGCC-ACCuaccgCCg -3' miRNA: 3'- guaaCCGGGUaGGCCGGcUGGuua--GG- -5' |
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| 13340 | 5' | -55.8 | NC_003409.1 | + | 82437 | 0.66 | 0.89717 |
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Target: 5'- ---cGGCCCAgggggggugggauUCCcugGGCCGACUGGguaCCa -3' miRNA: 3'- guaaCCGGGU-------------AGG---CCGGCUGGUUa--GG- -5' |
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| 13340 | 5' | -55.8 | NC_003409.1 | + | 88791 | 0.66 | 0.910383 |
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Target: 5'- --gUGGCCCAUucugagccaCCGGCUuuaGGCauGUCCg -3' miRNA: 3'- guaACCGGGUA---------GGCCGG---CUGguUAGG- -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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