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 + 6273 1.1 0.000462
Target:  5'- aCCGACAGGCCACCGCACGUCGGUUCGc -3'
miRNA:   3'- -GGCUGUCCGGUGGCGUGCAGCCAAGC- -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 + 22140 0.75 0.162704
Target:  5'- cCCGAC-GGCCGCCGUGCugguuGUgGGUUCa -3'
miRNA:   3'- -GGCUGuCCGGUGGCGUG-----CAgCCAAGc -5'
28116 3' -57.7 NC_005887.1 + 7275 0.74 0.181095
Target:  5'- gCCGACAGcGCCugCGCACG-CGaGaaUUCGa -3'
miRNA:   3'- -GGCUGUC-CGGugGCGUGCaGC-C--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 + 6395 0.7 0.317504
Target:  5'- uUCGGCAGaacGCCGCCGUacagcuugcgccACGUCGGUgUGg -3'
miRNA:   3'- -GGCUGUC---CGGUGGCG------------UGCAGCCAaGC- -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 + 18995 0.7 0.333146
Target:  5'- gCCGAC-GGCCGCUGCGagauUCGGUgagCGc -3'
miRNA:   3'- -GGCUGuCCGGUGGCGUgc--AGCCAa--GC- -5'
28116 3' -57.7 NC_005887.1 + 5113 0.7 0.349346
Target:  5'- uCCGGCGcGGCCAUUGCcgugccuuCGUUGGcUUCGg -3'
miRNA:   3'- -GGCUGU-CCGGUGGCGu-------GCAGCC-AAGC- -5'
28116 3' -57.7 NC_005887.1 + 11778 0.7 0.349346
Target:  5'- cUCGGCGGcGUCcucGCUGCucggcgGCGUCGGUUCGu -3'
miRNA:   3'- -GGCUGUC-CGG---UGGCG------UGCAGCCAAGC- -5'
28116 3' -57.7 NC_005887.1 + 21871 0.69 0.40123
Target:  5'- cCCGGCAGcGCCGCgG-ACGUCGuGUUg- -3'
miRNA:   3'- -GGCUGUC-CGGUGgCgUGCAGC-CAAgc -5'
28116 3' -57.7 NC_005887.1 + 10507 0.68 0.410343
Target:  5'- gCGAUGGGUgCACUGCGCcGUCGG-UCa -3'
miRNA:   3'- gGCUGUCCG-GUGGCGUG-CAGCCaAGc -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 + 41664 0.68 0.435575
Target:  5'- gCCGGCcgccgcaccuGGGCCGCCGCugGccgacaggaacgucUCGGcgCu -3'
miRNA:   3'- -GGCUG----------UCCGGUGGCGugC--------------AGCCaaGc -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 + 24953 0.68 0.438434
Target:  5'- gCGcGCGGGCCGCCuuGCGCG-CGGccgCGa -3'
miRNA:   3'- gGC-UGUCCGGUGG--CGUGCaGCCaa-GC- -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.