Results 1 - 20 of 44 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 | |||||||
17002 | 3' | -55.5 | NC_004333.2 | + | 44509 | 1.1 | 0.000654 |
Target: 5'- gCUCAGACCGUCGCGAACGAGCUGCACa -3' miRNA: 3'- -GAGUCUGGCAGCGCUUGCUCGACGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 13967 | 0.76 | 0.184187 |
Target: 5'- uUCAGgcggcgGCCGgUGCGcGCGAGCUGCGCg -3' miRNA: 3'- gAGUC------UGGCaGCGCuUGCUCGACGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 41639 | 0.74 | 0.260285 |
Target: 5'- -gCAGAUUGUCGgGcGCGGGCUGCGg -3' miRNA: 3'- gaGUCUGGCAGCgCuUGCUCGACGUg -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 38355 | 0.72 | 0.303303 |
Target: 5'- gCUCAGGC-GaCGCGGACGGGCagGCAUa -3' miRNA: 3'- -GAGUCUGgCaGCGCUUGCUCGa-CGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 30767 | 0.71 | 0.351585 |
Target: 5'- gUCAG-CgCGUCGUGAcCGcGCUGCGCg -3' miRNA: 3'- gAGUCuG-GCAGCGCUuGCuCGACGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 41459 | 0.71 | 0.351585 |
Target: 5'- gUCGG-CCGUCGUGAuccaugGCGAGCUcgagaagucggaGCGCg -3' miRNA: 3'- gAGUCuGGCAGCGCU------UGCUCGA------------CGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 38996 | 0.71 | 0.359282 |
Target: 5'- -aCAcuGCCGUCGCGAACGAacgcaagcgcgcaGCUGCGg -3' miRNA: 3'- gaGUc-UGGCAGCGCUUGCU-------------CGACGUg -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 13878 | 0.7 | 0.405074 |
Target: 5'- -cCGcGCCG-CGCGAagucggccggcACGGGCUGCGCg -3' miRNA: 3'- gaGUcUGGCaGCGCU-----------UGCUCGACGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 31353 | 0.7 | 0.424008 |
Target: 5'- aUCAGACCGcUGcCGAGCGAcgcaGCcGCGCg -3' miRNA: 3'- gAGUCUGGCaGC-GCUUGCU----CGaCGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 35834 | 0.7 | 0.433672 |
Target: 5'- ---cGACCGUCGCGAACGugaaUGCGa -3' miRNA: 3'- gaguCUGGCAGCGCUUGCucg-ACGUg -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 35800 | 0.7 | 0.443462 |
Target: 5'- -cCGGGCgGggCGCGGGCGGGCgcuacgGCGCc -3' miRNA: 3'- gaGUCUGgCa-GCGCUUGCUCGa-----CGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 10617 | 0.7 | 0.443462 |
Target: 5'- -gUAGACCaaCGCGucgGCGAGCUGaCGCa -3' miRNA: 3'- gaGUCUGGcaGCGCu--UGCUCGAC-GUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 35486 | 0.69 | 0.463409 |
Target: 5'- -aCGGGCCGgugagCGUGccgccuGCGAGCgGCACg -3' miRNA: 3'- gaGUCUGGCa----GCGCu-----UGCUCGaCGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 30123 | 0.69 | 0.463409 |
Target: 5'- gUCGGACUG-CGCaGcAGCGGGCaGCGCg -3' miRNA: 3'- gAGUCUGGCaGCG-C-UUGCUCGaCGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 20626 | 0.69 | 0.470501 |
Target: 5'- gUCGGGCCaauucgacgcgagcGUCGC-AACGGcGCUGCGCc -3' miRNA: 3'- gAGUCUGG--------------CAGCGcUUGCU-CGACGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 39595 | 0.69 | 0.473557 |
Target: 5'- gCUCAGAUCGUCGCGuauCuGGCUGa-- -3' miRNA: 3'- -GAGUCUGGCAGCGCuu-GcUCGACgug -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 7802 | 0.69 | 0.473557 |
Target: 5'- -cCAGGCCGagCGCGGACGAGUaGUuuaGCu -3' miRNA: 3'- gaGUCUGGCa-GCGCUUGCUCGaCG---UG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 24428 | 0.69 | 0.473557 |
Target: 5'- ---cGACuCGUCGCGcguCGAGCUGCcCg -3' miRNA: 3'- gaguCUG-GCAGCGCuu-GCUCGACGuG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 40345 | 0.69 | 0.482785 |
Target: 5'- -gCAGGCCGcgucgaucUgGCGAGCGAGCUaaacuacucguccGCGCu -3' miRNA: 3'- gaGUCUGGC--------AgCGCUUGCUCGA-------------CGUG- -5' |
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17002 | 3' | -55.5 | NC_004333.2 | + | 10501 | 0.69 | 0.483816 |
Target: 5'- -cCGGGCCGgcCGaCGAGCGGGUcggGCGCg -3' miRNA: 3'- gaGUCUGGCa-GC-GCUUGCUCGa--CGUG- -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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