Results 1 - 20 of 43 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 | |||||||
12329 | 3' | -55.6 | NC_003324.1 | + | 42316 | 0.66 | 0.682088 |
Target: 5'- cGUGCCGgg-CGCCGGuGAcagacuuaGAGCGa- -3' miRNA: 3'- aCGCGGUauaGCGGCCuCU--------UUCGCgc -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 47706 | 0.66 | 0.725137 |
Target: 5'- gGCgGCCcgGUCGCCGucau--GCGCGg -3' miRNA: 3'- aCG-CGGuaUAGCGGCcucuuuCGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 13012 | 0.66 | 0.671179 |
Target: 5'- aGCGCCucaagCGCCuuGAGAGAGaugGCGg -3' miRNA: 3'- aCGCGGuaua-GCGGc-CUCUUUCg--CGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 21396 | 0.66 | 0.671179 |
Target: 5'- cGCGCgAaaucgaggaUAUCGCCGGc-GAGGCgGCGa -3' miRNA: 3'- aCGCGgU---------AUAGCGGCCucUUUCG-CGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 13580 | 0.66 | 0.682088 |
Target: 5'- aGCGCCGUcgCGaugaCaGAGA-GGCGCu -3' miRNA: 3'- aCGCGGUAuaGCg---GcCUCUuUCGCGc -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 50274 | 0.66 | 0.682088 |
Target: 5'- -uCGCCGacuUGUCGCUgaugcccauGGcgaAGAAAGCGCGg -3' miRNA: 3'- acGCGGU---AUAGCGG---------CC---UCUUUCGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 38635 | 0.66 | 0.692949 |
Target: 5'- cGUGCCcUAUCGCCcGGAGcu-GC-CGg -3' miRNA: 3'- aCGCGGuAUAGCGG-CCUCuuuCGcGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 32484 | 0.66 | 0.703752 |
Target: 5'- gUGCGCgGUAagagcgCGCCG-AGguGGUGCGa -3' miRNA: 3'- -ACGCGgUAUa-----GCGGCcUCuuUCGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 21862 | 0.66 | 0.713415 |
Target: 5'- aGCGCucgacaaCAUGUCGCCGGAcGAGuuccuCGCc -3' miRNA: 3'- aCGCG-------GUAUAGCGGCCU-CUUuc---GCGc -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 34224 | 0.66 | 0.714485 |
Target: 5'- uUGUGCCGgucccugaccUGUCaCCGGucgacaGGGAGGCGUGa -3' miRNA: 3'- -ACGCGGU----------AUAGcGGCC------UCUUUCGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 23494 | 0.66 | 0.725137 |
Target: 5'- gGCGCCAccgCGCgGccaacGAGAaagccGAGCGCGu -3' miRNA: 3'- aCGCGGUauaGCGgC-----CUCU-----UUCGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 4271 | 0.67 | 0.604222 |
Target: 5'- aUGCGCCAcggcguuucCGCCGGuGGcaagaugucccgcAAGCGCa -3' miRNA: 3'- -ACGCGGUaua------GCGGCCuCU-------------UUCGCGc -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 35127 | 0.67 | 0.660233 |
Target: 5'- aGCGCC--GUCGCCGuuGAccucAGCGCc -3' miRNA: 3'- aCGCGGuaUAGCGGCcuCUu---UCGCGc -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 2827 | 0.67 | 0.605319 |
Target: 5'- cUGCGgUAUuuUCGCCGGgcgagGGGGAGCGUc -3' miRNA: 3'- -ACGCgGUAu-AGCGGCC-----UCUUUCGCGc -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 27709 | 0.67 | 0.604222 |
Target: 5'- gUGCGCCucggccuUAUCGCgGGcaccGAAccacuucGGCGCGa -3' miRNA: 3'- -ACGCGGu------AUAGCGgCCu---CUU-------UCGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 7775 | 0.67 | 0.660233 |
Target: 5'- cGCGCCgGUGUUuCCGGGGucGGCGg- -3' miRNA: 3'- aCGCGG-UAUAGcGGCCUCuuUCGCgc -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 3146 | 0.67 | 0.660233 |
Target: 5'- aGCGCCGUGcgGCCauuGAGAGAGacCGCGc -3' miRNA: 3'- aCGCGGUAUagCGGc--CUCUUUC--GCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 36723 | 0.67 | 0.645967 |
Target: 5'- gGCGgCAccuUCGCCGGGGAAaucuaugacccgcuAucGCGCGg -3' miRNA: 3'- aCGCgGUau-AGCGGCCUCUU--------------U--CGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 26532 | 0.67 | 0.627282 |
Target: 5'- aUGuCGCCGacAUUGCCGucgaugaAGGAAGCGCGa -3' miRNA: 3'- -AC-GCGGUa-UAGCGGCc------UCUUUCGCGC- -5' |
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12329 | 3' | -55.6 | NC_003324.1 | + | 8735 | 0.67 | 0.616293 |
Target: 5'- gGCGgCGg--UGUCGGAGAAgucGGUGCGa -3' miRNA: 3'- aCGCgGUauaGCGGCCUCUU---UCGCGC- -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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