miRNA display CGI


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
23461 3' -50.5 NC_005259.1 + 41205 0.66 0.955505
Target:  5'- gCCgUUGUCGGuguggaucgucacgcCCUGCUCGGCGGugACg-- -3'
miRNA:   3'- -GG-AAUAGCU---------------GGACGAGUCGCU--UGagu -5'
23461 3' -50.5 NC_005259.1 + 30324 0.66 0.953799
Target:  5'- gCCgcGUCGuACCUGacacgCAGCacGAGCUCAc -3'
miRNA:   3'- -GGaaUAGC-UGGACga---GUCG--CUUGAGU- -5'
23461 3' -50.5 NC_005259.1 + 44046 0.66 0.953799
Target:  5'- gCCUUGaCGACCgGCUCgAGUGcGCUg- -3'
miRNA:   3'- -GGAAUaGCUGGaCGAG-UCGCuUGAgu -5'
23461 3' -50.5 NC_005259.1 + 60139 0.66 0.949341
Target:  5'- uCCUgcgCGGCCUuggccgccGcCUCAGCGGcCUCAc -3'
miRNA:   3'- -GGAauaGCUGGA--------C-GAGUCGCUuGAGU- -5'
23461 3' -50.5 NC_005259.1 + 67792 0.66 0.944607
Target:  5'- aCCUUGUUGGCaCcGCgu-GCGAGCUUg -3'
miRNA:   3'- -GGAAUAGCUG-GaCGaguCGCUUGAGu -5'
23461 3' -50.5 NC_005259.1 + 65068 0.66 0.944607
Target:  5'- gCCUugUGUCGcuGCCaccCUCAGuCGAGCUCGg -3'
miRNA:   3'- -GGA--AUAGC--UGGac-GAGUC-GCUUGAGU- -5'
23461 3' -50.5 NC_005259.1 + 54563 0.67 0.934294
Target:  5'- aCUUG-CG-CgaGCUCAGUGAGCUUg -3'
miRNA:   3'- gGAAUaGCuGgaCGAGUCGCUUGAGu -5'
23461 3' -50.5 NC_005259.1 + 11843 0.67 0.928711
Target:  5'- gCCgcacucCGACCUGCcacccgUCGGCGAACg-- -3'
miRNA:   3'- -GGaaua--GCUGGACG------AGUCGCUUGagu -5'
23461 3' -50.5 NC_005259.1 + 68619 0.67 0.922843
Target:  5'- gCUUGUUGGCCaGCcgggcacccUCGGCGAACa-- -3'
miRNA:   3'- gGAAUAGCUGGaCG---------AGUCGCUUGagu -5'
23461 3' -50.5 NC_005259.1 + 9556 0.68 0.91025
Target:  5'- cCCggccUCGACC-GCgUCGGCGAgguGCUCGu -3'
miRNA:   3'- -GGaau-AGCUGGaCG-AGUCGCU---UGAGU- -5'
23461 3' -50.5 NC_005259.1 + 52744 0.68 0.91025
Target:  5'- gCCgggAUCGAUCUGCacaaCAuCGAGCUCGu -3'
miRNA:   3'- -GGaa-UAGCUGGACGa---GUcGCUUGAGU- -5'
23461 3' -50.5 NC_005259.1 + 10416 0.68 0.889255
Target:  5'- cCCUUGagcACCgucCUCGGCGAGCUCGa -3'
miRNA:   3'- -GGAAUagcUGGac-GAGUCGCUUGAGU- -5'
23461 3' -50.5 NC_005259.1 + 54990 0.69 0.865829
Target:  5'- aCCUcAUCGAUCuugUGCUCGGCucGCUUg -3'
miRNA:   3'- -GGAaUAGCUGG---ACGAGUCGcuUGAGu -5'
23461 3' -50.5 NC_005259.1 + 29388 0.69 0.857509
Target:  5'- cCCgc--CGACCUacaccgaggGcCUCGGCGAGCUCGu -3'
miRNA:   3'- -GGaauaGCUGGA---------C-GAGUCGCUUGAGU- -5'
23461 3' -50.5 NC_005259.1 + 55945 0.69 0.840146
Target:  5'- aCCgagGUUGACCcGCUguGCGGACa-- -3'
miRNA:   3'- -GGaa-UAGCUGGaCGAguCGCUUGagu -5'
23461 3' -50.5 NC_005259.1 + 47865 0.7 0.796916
Target:  5'- gCCUUGUUGGCCUcuuccagcuuggccgGgUCAGCGucgGCUCGu -3'
miRNA:   3'- -GGAAUAGCUGGA---------------CgAGUCGCu--UGAGU- -5'
23461 3' -50.5 NC_005259.1 + 50361 0.72 0.719977
Target:  5'- --aUGUCGGugUGCUCGGCGAgaaACUCGg -3'
miRNA:   3'- ggaAUAGCUggACGAGUCGCU---UGAGU- -5'
23461 3' -50.5 NC_005259.1 + 33854 0.72 0.709094
Target:  5'- uCCUUgGUCGACucaagcauCUGCUCGGUGAGCa-- -3'
miRNA:   3'- -GGAA-UAGCUG--------GACGAGUCGCUUGagu -5'
23461 3' -50.5 NC_005259.1 + 55731 0.73 0.653744
Target:  5'- cCCUUGUUGGCaaGCUUGGUGGugUCGa -3'
miRNA:   3'- -GGAAUAGCUGgaCGAGUCGCUugAGU- -5'
23461 3' -50.5 NC_005259.1 + 18897 0.74 0.591188
Target:  5'- --aUGUCGACCucggcaacgaucugaUGCUCGGCG-ACUCGa -3'
miRNA:   3'- ggaAUAGCUGG---------------ACGAGUCGCuUGAGU- -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.