miRNA: 3'- -GUAgCgaCAGCUGUg--UugCG---UCCCGG- -5'
miRNA: 3'- guaGCGACAGCUG-------------UGUUgCg-UCCCGG- -5'
miRNA: 3'- guagCG--ACAGCUGUGuUGCg---UCCCGG- -5'
miRNA: 3'- -GUAGCGACAGCUGUGUUGCGUCCCGG- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 17395 | 3' | -54.9 | NC_004421.1 | + | 4989 | 0.66 | 0.214477 |
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Target: 5'- uCAUgGgaGUCGGCAagaAugGCcuuAGGGUCa -3' miRNA: 3'- -GUAgCgaCAGCUGUg--UugCG---UCCCGG- -5' |
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| 17395 | 3' | -54.9 | NC_004421.1 | + | 6257 | 0.66 | 0.207376 |
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Target: 5'- --aCGUUGUCGGCaaucuugggaagaGCAGgGgaGGGGCCg -3' miRNA: 3'- guaGCGACAGCUG-------------UGUUgCg-UCCCGG- -5' |
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| 17395 | 3' | -54.9 | NC_004421.1 | + | 1639 | 0.67 | 0.201718 |
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Target: 5'- ---aGCcuUGUCGACGCcACGggagAGGGCCu -3' miRNA: 3'- guagCG--ACAGCUGUGuUGCg---UCCCGG- -5' |
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| 17395 | 3' | -54.9 | NC_004421.1 | + | 4054 | 1.11 | 0.000051 |
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Target: 5'- cCAUCGCUGUCGACACAACGCAGGGCCc -3' miRNA: 3'- -GUAGCGACAGCUGUGUUGCGUCCCGG- -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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