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miRNA: 3'- -UGGGCCGGUgg----------UGUGGGCUaGGaCGG- -5'
miRNA: 3'- -UGG--GCCgGUGGUGuGGGCUA----GGACGG- -5'
miRNA: 3'- -UGGGC--CGGUgGUGUGGGCUAgGaCGG- -5'
miRNA: 3'- -UGGG-----CCG-------GUGGUGUGGGCUAGgA-CGG- -5'
Results 101 - 104 of 104 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 | |||||||
| 23249 | 5' | -61.5 | NC_005259.1 | + | 10870 | 0.66 | 0.457805 |
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Target: 5'- gAUCCGGCCAagcgcaugagcaGCACCCGGcCCcGUCg -3' miRNA: 3'- -UGGGCCGGUgg----------UGUGGGCUaGGaCGG- -5' |
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| 23249 | 5' | -61.5 | NC_005259.1 | + | 12161 | 0.66 | 0.461556 |
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Target: 5'- cGCCgaCGG-CACCGCcCUCGGUcgaaCCUGCCg -3' miRNA: 3'- -UGG--GCCgGUGGUGuGGGCUA----GGACGG- -5' |
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| 23249 | 5' | -61.5 | NC_005259.1 | + | 61378 | 0.66 | 0.471005 |
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Target: 5'- cACCUGcuGCCA-CACGCCCGAUgCcGUCg -3' miRNA: 3'- -UGGGC--CGGUgGUGUGGGCUAgGaCGG- -5' |
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| 23249 | 5' | -61.5 | NC_005259.1 | + | 31551 | 0.66 | 0.432923 |
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Target: 5'- cGCCUuguagGGUgccgcugCACCGCGCCUGAUCgUcGCCa -3' miRNA: 3'- -UGGG-----CCG-------GUGGUGUGGGCUAGgA-CGG- -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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