miRNA display CGI


Results 1 - 20 of 31 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
20711 3' -52.1 NC_004688.1 + 91612 0.66 0.971314
Target:  5'- cGCCGauGCGGUGGACggagAUGAAcgGCa -3'
miRNA:   3'- -UGGCgcCGCUACCUGgaaaUGCUU--UG- -5'
20711 3' -52.1 NC_004688.1 + 7111 0.66 0.968229
Target:  5'- uACCGCGGC---GGGCCggagaUUGCGucuACg -3'
miRNA:   3'- -UGGCGCCGcuaCCUGGa----AAUGCuu-UG- -5'
20711 3' -52.1 NC_004688.1 + 25644 0.66 0.968229
Target:  5'- uCCGCGGCGA---GCCg--ACGGAGa -3'
miRNA:   3'- uGGCGCCGCUaccUGGaaaUGCUUUg -5'
20711 3' -52.1 NC_004688.1 + 110006 0.66 0.964915
Target:  5'- cGCCGCguggagcaGGCGGUGuGGCa---GCGGGACg -3'
miRNA:   3'- -UGGCG--------CCGCUAC-CUGgaaaUGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 63981 0.66 0.959121
Target:  5'- gACCGUGGCcgGAuucccaaggauauugUGGacGCCUUcgACGAGGCg -3'
miRNA:   3'- -UGGCGCCG--CU---------------ACC--UGGAAa-UGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 47924 0.66 0.957576
Target:  5'- uCCGCGGuUGA-GGuauccACCUUgcUGCGGAACa -3'
miRNA:   3'- uGGCGCC-GCUaCC-----UGGAA--AUGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 45499 0.67 0.949252
Target:  5'- uGCCGUGGUcuaccacGACCaUUUGCGGGACg -3'
miRNA:   3'- -UGGCGCCGcuac---CUGG-AAAUGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 36666 0.67 0.944708
Target:  5'- aGCgGCGGUGA-GGGCUccgacgaggACGAGACu -3'
miRNA:   3'- -UGgCGCCGCUaCCUGGaaa------UGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 18423 0.67 0.934845
Target:  5'- -aCGUGGCGGUGaGACU----CGAAGCg -3'
miRNA:   3'- ugGCGCCGCUAC-CUGGaaauGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 75359 0.67 0.934324
Target:  5'- cACCGcCGGCGccgccauAUGuGGCCg--ACGggGCu -3'
miRNA:   3'- -UGGC-GCCGC-------UAC-CUGGaaaUGCuuUG- -5'
20711 3' -52.1 NC_004688.1 + 26745 0.67 0.929521
Target:  5'- cCCGUguaGGCGAUGGACUcca--GggGCa -3'
miRNA:   3'- uGGCG---CCGCUACCUGGaaaugCuuUG- -5'
20711 3' -52.1 NC_004688.1 + 59007 0.67 0.929521
Target:  5'- gUCGaUGGCGuAUGGACCU--GCGAAuGCg -3'
miRNA:   3'- uGGC-GCCGC-UACCUGGAaaUGCUU-UG- -5'
20711 3' -52.1 NC_004688.1 + 52920 0.67 0.929521
Target:  5'- gACCGCGGCccGggGGcACCU---CGggGCu -3'
miRNA:   3'- -UGGCGCCG--CuaCC-UGGAaauGCuuUG- -5'
20711 3' -52.1 NC_004688.1 + 88010 0.68 0.923933
Target:  5'- cGCCGCGGCGAUuacGG-UCUUcGCGcuuGCg -3'
miRNA:   3'- -UGGCGCCGCUA---CCuGGAAaUGCuu-UG- -5'
20711 3' -52.1 NC_004688.1 + 10714 0.68 0.91197
Target:  5'- gGCCGCacCGAUGGACCga-GCGucACa -3'
miRNA:   3'- -UGGCGccGCUACCUGGaaaUGCuuUG- -5'
20711 3' -52.1 NC_004688.1 + 49035 0.68 0.91197
Target:  5'- gGCUGCGGCGGUaguugccgcgGGGCUcgu-CGGAGCu -3'
miRNA:   3'- -UGGCGCCGCUA----------CCUGGaaauGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 59914 0.68 0.905597
Target:  5'- gGCuCGcCGGCGAUgaaGGACgCg--GCGAAACg -3'
miRNA:   3'- -UG-GC-GCCGCUA---CCUG-GaaaUGCUUUG- -5'
20711 3' -52.1 NC_004688.1 + 104202 0.68 0.905597
Target:  5'- gGCCccagGCGGUGAUGG-CCUggAUGAAc- -3'
miRNA:   3'- -UGG----CGCCGCUACCuGGAaaUGCUUug -5'
20711 3' -52.1 NC_004688.1 + 86009 0.69 0.884943
Target:  5'- aGCCGUGGCGA-GGuuGCCg--ACGAGu- -3'
miRNA:   3'- -UGGCGCCGCUaCC--UGGaaaUGCUUug -5'
20711 3' -52.1 NC_004688.1 + 62714 0.69 0.87756
Target:  5'- aGCCGCaauGGCGAgaucgcGGAUUggaUGCGAGACg -3'
miRNA:   3'- -UGGCG---CCGCUa-----CCUGGaa-AUGCUUUG- -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.