miRNA display CGI


Results 1 - 15 of 15 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
19197 5' -54.4 NC_004684.1 + 58276 0.66 0.841228
Target:  5'- cCUCGGCGGu---GAU-GGCCCCAcGGu -3'
miRNA:   3'- -GAGCUGUCuaucCUAgCCGGGGUaCC- -5'
19197 5' -54.4 NC_004684.1 + 27344 0.66 0.814502
Target:  5'- -aCGACgAGAgccgugcgaggGGGAUCGGCCCgGUc- -3'
miRNA:   3'- gaGCUG-UCUa----------UCCUAGCCGGGgUAcc -5'
19197 5' -54.4 NC_004684.1 + 49343 0.67 0.786109
Target:  5'- gUCGGCGcuGAcGGGAUCaGGCCcaggcuguCCAUGGc -3'
miRNA:   3'- gAGCUGU--CUaUCCUAG-CCGG--------GGUACC- -5'
19197 5' -54.4 NC_004684.1 + 57434 0.67 0.766389
Target:  5'- -aCGGCGGcguUAGGAUCGGgCgCAUGu -3'
miRNA:   3'- gaGCUGUCu--AUCCUAGCCgGgGUACc -5'
19197 5' -54.4 NC_004684.1 + 28037 0.67 0.757335
Target:  5'- -cCGGCAGAgcgcgagaucaugccGGuGGUCGGCCCCGgcGGu -3'
miRNA:   3'- gaGCUGUCUa--------------UC-CUAGCCGGGGUa-CC- -5'
19197 5' -54.4 NC_004684.1 + 40146 0.68 0.750223
Target:  5'- -cCGACAgGAUGGGAUCGGUgaucgcggucagcggCCCgAUGa -3'
miRNA:   3'- gaGCUGU-CUAUCCUAGCCG---------------GGG-UACc -5'
19197 5' -54.4 NC_004684.1 + 45371 0.68 0.714938
Target:  5'- gUCGcgguuCAGGUcGGcGAgcacCGGCCCCAUGGc -3'
miRNA:   3'- gAGCu----GUCUA-UC-CUa---GCCGGGGUACC- -5'
19197 5' -54.4 NC_004684.1 + 42224 0.68 0.704367
Target:  5'- gUCGG-AGAUGGcGUCGGCaCCCAUGc -3'
miRNA:   3'- gAGCUgUCUAUCcUAGCCG-GGGUACc -5'
19197 5' -54.4 NC_004684.1 + 62004 0.68 0.693728
Target:  5'- -aCGccACGGGUAGGAUCGGCguuCCgGUGa -3'
miRNA:   3'- gaGC--UGUCUAUCCUAGCCG---GGgUACc -5'
19197 5' -54.4 NC_004684.1 + 60967 0.69 0.68303
Target:  5'- cCUCGugGcuGGUGGcGUCGGCCUCgGUGGu -3'
miRNA:   3'- -GAGCugU--CUAUCcUAGCCGGGG-UACC- -5'
19197 5' -54.4 NC_004684.1 + 61334 0.69 0.672287
Target:  5'- cCUCGGCGGcGUAGGuggCGGCCaggugaAUGGu -3'
miRNA:   3'- -GAGCUGUC-UAUCCua-GCCGGgg----UACC- -5'
19197 5' -54.4 NC_004684.1 + 42526 0.69 0.672287
Target:  5'- -gCGGCuuGAUGGGGgugccgaaCGGCCCgGUGGc -3'
miRNA:   3'- gaGCUGu-CUAUCCUa-------GCCGGGgUACC- -5'
19197 5' -54.4 NC_004684.1 + 7545 0.72 0.511945
Target:  5'- uUCGACGcGGUGcuGGAcCGGCCCCGggUGGc -3'
miRNA:   3'- gAGCUGU-CUAU--CCUaGCCGGGGU--ACC- -5'
19197 5' -54.4 NC_004684.1 + 59623 0.72 0.491509
Target:  5'- gCUCGACcacGGUgGGGGUCGGCCCgGUcaGGu -3'
miRNA:   3'- -GAGCUGu--CUA-UCCUAGCCGGGgUA--CC- -5'
19197 5' -54.4 NC_004684.1 + 33948 1.1 0.001524
Target:  5'- cCUCGACAGAUAGGAUCGGCCCCAUGGc -3'
miRNA:   3'- -GAGCUGUCUAUCCUAGCCGGGGUACC- -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.