miRNA display CGI


Results 1 - 20 of 51 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
28116 3' -57.7 NC_005887.1 + 36298 0.66 0.528687
Target:  5'- uCCGGuuGGCCGauCUGCGCGgCGG-UCGa -3'
miRNA:   3'- -GGCUguCCGGU--GGCGUGCaGCCaAGC- -5'
28116 3' -57.7 NC_005887.1 + 14674 0.68 0.44804
Target:  5'- uUCGACGcuGCC-CCGCACGaUCGGgcucgUCGc -3'
miRNA:   3'- -GGCUGUc-CGGuGGCGUGC-AGCCa----AGC- -5'
28116 3' -57.7 NC_005887.1 + 27985 0.68 0.44804
Target:  5'- gCCGGCucGGGCCgaAUCGCGuCGUCGGccggCGu -3'
miRNA:   3'- -GGCUG--UCCGG--UGGCGU-GCAGCCaa--GC- -5'
28116 3' -57.7 NC_005887.1 + 33942 0.68 0.457761
Target:  5'- gCCGACGGcGCUcgGCgaGCACGUCGcGUgCGg -3'
miRNA:   3'- -GGCUGUC-CGG--UGg-CGUGCAGC-CAaGC- -5'
28116 3' -57.7 NC_005887.1 + 40726 0.68 0.457761
Target:  5'- aCGACuucgAGGUCGCCGCccGCGUCGaggCGa -3'
miRNA:   3'- gGCUG----UCCGGUGGCG--UGCAGCcaaGC- -5'
28116 3' -57.7 NC_005887.1 + 12902 0.67 0.477535
Target:  5'- aUCGGCAcGGCgaGCCaGCACGcCGGUUUc -3'
miRNA:   3'- -GGCUGU-CCGg-UGG-CGUGCaGCCAAGc -5'
28116 3' -57.7 NC_005887.1 + 35150 0.67 0.477535
Target:  5'- aCgGACGGGCgGCCGuCACGcugcacgaucUCGGccUCGa -3'
miRNA:   3'- -GgCUGUCCGgUGGC-GUGC----------AGCCa-AGC- -5'
28116 3' -57.7 NC_005887.1 + 18136 0.67 0.48657
Target:  5'- aCCGGCgaagcgcGGGCCGCCG-ACGUCGugcCGa -3'
miRNA:   3'- -GGCUG-------UCCGGUGGCgUGCAGCcaaGC- -5'
28116 3' -57.7 NC_005887.1 + 2215 0.67 0.507957
Target:  5'- aCCGAUGGGCgGCUGgCGCauccgGUCGGaagUCGu -3'
miRNA:   3'- -GGCUGUCCGgUGGC-GUG-----CAGCCa--AGC- -5'
28116 3' -57.7 NC_005887.1 + 24953 0.68 0.438434
Target:  5'- gCGcGCGGGCCGCCuuGCGCG-CGGccgCGa -3'
miRNA:   3'- gGC-UGUCCGGUGG--CGUGCaGCCaa-GC- -5'
28116 3' -57.7 NC_005887.1 + 12132 0.68 0.43748
Target:  5'- aCGAgCAGGCCGCCGuCGCGcgccagaUUGGUgacgaUCGc -3'
miRNA:   3'- gGCU-GUCCGGUGGC-GUGC-------AGCCA-----AGC- -5'
28116 3' -57.7 NC_005887.1 + 40859 0.68 0.428947
Target:  5'- aCCGGCGaaGCCGCCGCGCG-CG--UCGa -3'
miRNA:   3'- -GGCUGUc-CGGUGGCGUGCaGCcaAGC- -5'
28116 3' -57.7 NC_005887.1 + 25086 0.79 0.086231
Target:  5'- -gGugAGGCCGCCGC-CGUCGGauUUCGc -3'
miRNA:   3'- ggCugUCCGGUGGCGuGCAGCC--AAGC- -5'
28116 3' -57.7 NC_005887.1 + 40913 0.74 0.196075
Target:  5'- gCCGA-AGGCUACCGCGCGcgcacCGaGUUCGg -3'
miRNA:   3'- -GGCUgUCCGGUGGCGUGCa----GC-CAAGC- -5'
28116 3' -57.7 NC_005887.1 + 32439 0.72 0.256584
Target:  5'- gCCGGCGGcgaucagguugcgcaGCCACUGCGCGgcgugCGGaUCGa -3'
miRNA:   3'- -GGCUGUC---------------CGGUGGCGUGCa----GCCaAGC- -5'
28116 3' -57.7 NC_005887.1 + 5410 0.71 0.287897
Target:  5'- aCCGGCGGGCggCGCCGCAgCGacCGGcgCGa -3'
miRNA:   3'- -GGCUGUCCG--GUGGCGU-GCa-GCCaaGC- -5'
28116 3' -57.7 NC_005887.1 + 17282 0.71 0.29509
Target:  5'- aCGuCGGGCggCGCCGCGCGcgcaaacgcCGGUUCGg -3'
miRNA:   3'- gGCuGUCCG--GUGGCGUGCa--------GCCAAGC- -5'
28116 3' -57.7 NC_005887.1 + 24881 0.71 0.302422
Target:  5'- gCGGC-GGCCgauGCCGCGCGcUCGGUcuucuUCGc -3'
miRNA:   3'- gGCUGuCCGG---UGGCGUGC-AGCCA-----AGC- -5'
28116 3' -57.7 NC_005887.1 + 20685 0.7 0.333146
Target:  5'- gUCGACGguGGCUA-CGCAUG-CGGUUCGg -3'
miRNA:   3'- -GGCUGU--CCGGUgGCGUGCaGCCAAGC- -5'
28116 3' -57.7 NC_005887.1 + 11778 0.7 0.349346
Target:  5'- cUCGGCGGcGUCcucGCUGCucggcgGCGUCGGUUCGu -3'
miRNA:   3'- -GGCUGUC-CGG---UGGCG------UGCAGCCAAGC- -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.