Results 1 - 20 of 22 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 | |||||||
28109 | 3' | -53 | NC_005887.1 | + | 4432 | 1.11 | 0.000815 |
Target: 5'- uGCAAUGGUUGCAGCAGCUCGGCAUCGu -3' miRNA: 3'- -CGUUACCAACGUCGUCGAGCCGUAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 18547 | 0.66 | 0.742047 |
Target: 5'- uCGGUGG--GCGGCGGCgcCGGCuUCGc -3' miRNA: 3'- cGUUACCaaCGUCGUCGa-GCCGuAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 19681 | 0.66 | 0.708748 |
Target: 5'- aGCGAUGGUgugacGCuGCAGUUCGauaGCGUg- -3' miRNA: 3'- -CGUUACCAa----CGuCGUCGAGC---CGUAgc -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 9713 | 0.66 | 0.707623 |
Target: 5'- aGCGAUcg-UGCAGCAGCUcaacgccCGGCAg-- -3' miRNA: 3'- -CGUUAccaACGUCGUCGA-------GCCGUagc -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 39400 | 0.67 | 0.674709 |
Target: 5'- cGCAaccGUGGUcGCGaccGC-GUUCGGCAUCu -3' miRNA: 3'- -CGU---UACCAaCGU---CGuCGAGCCGUAGc -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 11768 | 0.67 | 0.651775 |
Target: 5'- cCGGUGGgaucucgGCGGCGuccucgcuGCUCGGCggcGUCGg -3' miRNA: 3'- cGUUACCaa-----CGUCGU--------CGAGCCG---UAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 37320 | 0.67 | 0.651775 |
Target: 5'- ----cGGUcgucGCAGCAGCgccggcacUGGCAUCGg -3' miRNA: 3'- cguuaCCAa---CGUCGUCGa-------GCCGUAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 41597 | 0.68 | 0.640273 |
Target: 5'- aGCGGcGGcccaggUGCGGCGGC-CGGCG-CGg -3' miRNA: 3'- -CGUUaCCa-----ACGUCGUCGaGCCGUaGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 27353 | 0.68 | 0.640273 |
Target: 5'- cGCAGcGGcgcGCAGacgAGCgUCGGCAUCGu -3' miRNA: 3'- -CGUUaCCaa-CGUCg--UCG-AGCCGUAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 3279 | 0.73 | 0.335513 |
Target: 5'- cGCGAUGGaUUccaugaucacgccgGCGacGCAGCUCuGGCAUCGg -3' miRNA: 3'- -CGUUACC-AA--------------CGU--CGUCGAG-CCGUAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 3866 | 0.72 | 0.382745 |
Target: 5'- aCGAUGuGUacgGCGGCAGCcCGGCAUaCGa -3' miRNA: 3'- cGUUAC-CAa--CGUCGUCGaGCCGUA-GC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 6045 | 0.72 | 0.392138 |
Target: 5'- -gGGUGGUgcuggugGCAGCGGCgCGGCAcUCa -3' miRNA: 3'- cgUUACCAa------CGUCGUCGaGCCGU-AGc -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 32445 | 0.7 | 0.526546 |
Target: 5'- gGCGAUcaGGUUGC-GCAGCcacugcgCGGCGUgCGg -3' miRNA: 3'- -CGUUA--CCAACGuCGUCGa------GCCGUA-GC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 12059 | 0.69 | 0.548865 |
Target: 5'- gGCGccGcGcUGCAGCAGgUCGGCAcgUCGc -3' miRNA: 3'- -CGUuaC-CaACGUCGUCgAGCCGU--AGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 11525 | 0.68 | 0.628762 |
Target: 5'- cGCAAcgcGGUcaagcUGauCAGCAGCUCGGCG-CGc -3' miRNA: 3'- -CGUUa--CCA-----AC--GUCGUCGAGCCGUaGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 17196 | 0.7 | 0.483011 |
Target: 5'- aGCAcc--UUGC-GUAGCUCGGCGUCGu -3' miRNA: 3'- -CGUuaccAACGuCGUCGAGCCGUAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 27838 | 0.66 | 0.742047 |
Target: 5'- cGUcAUGGc-GCucuaccucgccGGCGcGCUCGGCAUCGg -3' miRNA: 3'- -CGuUACCaaCG-----------UCGU-CGAGCCGUAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 30439 | 0.67 | 0.663258 |
Target: 5'- gGCGAcgccgaGCGGUacaccgAGCUCGGCAUCGg -3' miRNA: 3'- -CGUUaccaa-CGUCG------UCGAGCCGUAGC- -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 3011 | 0.68 | 0.605761 |
Target: 5'- -gGAUGGUcGCGGCGGUgccgCGGCGc-- -3' miRNA: 3'- cgUUACCAaCGUCGUCGa---GCCGUagc -5' |
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28109 | 3' | -53 | NC_005887.1 | + | 26969 | 0.68 | 0.605761 |
Target: 5'- aGCGAcucGGgcGCAGCuuCUCGGCAUUu -3' miRNA: 3'- -CGUUa--CCaaCGUCGucGAGCCGUAGc -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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