Results 1 - 20 of 30 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 | |||||||
12104 | 3' | -57.5 | NC_003309.1 | + | 3322 | 0.72 | 0.255102 |
Target: 5'- cGCGCgaUGUCgagCGCggaaaggcgcaGCGCGUCGAUCa -3' miRNA: 3'- -UGCGgaACAGaa-GCG-----------CGCGCGGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 5574 | 1.09 | 0.000516 |
Target: 5'- aACGCCUUGUCUUCGCGCGCGCCGAUCg -3' miRNA: 3'- -UGCGGAACAGAAGCGCGCGCGGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 6524 | 0.68 | 0.450255 |
Target: 5'- -aGCCUUGcUCUcggccgcUUGcCGCGCGCCcggGAUCa -3' miRNA: 3'- ugCGGAAC-AGA-------AGC-GCGCGCGG---CUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 7425 | 0.66 | 0.573228 |
Target: 5'- uGCGCCgcaacuucccgGUCUUCuucgGCGCGCGCUu--- -3' miRNA: 3'- -UGCGGaa---------CAGAAG----CGCGCGCGGcuag -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 7763 | 0.68 | 0.451231 |
Target: 5'- gGCGCCggcGcCUUCGCcgguGCGaCGCCGAg- -3' miRNA: 3'- -UGCGGaa-CaGAAGCG----CGC-GCGGCUag -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 9526 | 0.68 | 0.461055 |
Target: 5'- cGCGCCgcGUCgagCGCGCGCaCCGu-- -3' miRNA: 3'- -UGCGGaaCAGaa-GCGCGCGcGGCuag -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 10611 | 0.67 | 0.522182 |
Target: 5'- cUGCCggcaacgUUCGCGCGUGCCG-UCg -3' miRNA: 3'- uGCGGaacag--AAGCGCGCGCGGCuAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 10642 | 0.69 | 0.385893 |
Target: 5'- cAUGCCcg--CgaUGCGCGCGCCGAUUu -3' miRNA: 3'- -UGCGGaacaGaaGCGCGCGCGGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 10767 | 0.68 | 0.461055 |
Target: 5'- gUGCCUUG-CUUCGcCGCcgccucaaGCGCCGuccGUCg -3' miRNA: 3'- uGCGGAACaGAAGC-GCG--------CGCGGC---UAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 11205 | 0.77 | 0.130916 |
Target: 5'- gACGCCUccUG-CUUCGUGCGCaGCCGcUCg -3' miRNA: 3'- -UGCGGA--ACaGAAGCGCGCG-CGGCuAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 17757 | 0.66 | 0.543266 |
Target: 5'- -aGCCgu-UUUUCGCGCGCGgcagcUCGAUCc -3' miRNA: 3'- ugCGGaacAGAAGCGCGCGC-----GGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 18738 | 0.7 | 0.334288 |
Target: 5'- gGCGCCUUGUCga-GCGUGaucgucuCGCCGGc- -3' miRNA: 3'- -UGCGGAACAGaagCGCGC-------GCGGCUag -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 19303 | 0.67 | 0.522182 |
Target: 5'- cACGCCgagcgcGUUUUCG-GCGCGCaCGcgCg -3' miRNA: 3'- -UGCGGaa----CAGAAGCgCGCGCG-GCuaG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 19964 | 0.7 | 0.330289 |
Target: 5'- uGCGCCUgcgcgcgauccgCUUCGaCGCGCG-CGAUCg -3' miRNA: 3'- -UGCGGAaca---------GAAGC-GCGCGCgGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 22365 | 0.67 | 0.501422 |
Target: 5'- -gGCCUgcucGUCggcaagcCGaUGUGCGCCGAUCa -3' miRNA: 3'- ugCGGAa---CAGaa-----GC-GCGCGCGGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 22439 | 0.66 | 0.575384 |
Target: 5'- cUGCCggcGUCgagCGCgGCGCGCgaGAUCu -3' miRNA: 3'- uGCGGaa-CAGaa-GCG-CGCGCGg-CUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 22476 | 0.66 | 0.549647 |
Target: 5'- cCGCCgacgcggcggCaUCGUGCGCGgCGAUCg -3' miRNA: 3'- uGCGGaaca------GaAGCGCGCGCgGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 30809 | 0.68 | 0.47099 |
Target: 5'- gACGCC--GUCUggCGCGCaaugucGCGCCGcGUCu -3' miRNA: 3'- -UGCGGaaCAGAa-GCGCG------CGCGGC-UAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 31713 | 0.66 | 0.586192 |
Target: 5'- -gGCCgcaUGUCUggcUCG-GCGCGaCGAUCg -3' miRNA: 3'- ugCGGa--ACAGA---AGCgCGCGCgGCUAG- -5' |
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12104 | 3' | -57.5 | NC_003309.1 | + | 37296 | 0.67 | 0.532687 |
Target: 5'- gACGCCcUGaaUC-UCGCcgGCGCGUCGAUg -3' miRNA: 3'- -UGCGGaAC--AGaAGCG--CGCGCGGCUAg -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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