miRNA display CGI


Results 1 - 20 of 37 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
23843 3' -52.3 NC_005261.1 + 75078 0.66 0.984833
Target:  5'- cCGGCGGGGGCucggcgGGCAUcGUcUUCGGGACc -3'
miRNA:   3'- -GCUGCUCUCG------CUGUA-CA-AGGCCUUGc -5'
23843 3' -52.3 NC_005261.1 + 88145 0.66 0.984833
Target:  5'- cCGcGCGGGGGCGccccggccgcGCAgccGggCCGGGGCGa -3'
miRNA:   3'- -GC-UGCUCUCGC----------UGUa--CaaGGCCUUGC- -5'
23843 3' -52.3 NC_005261.1 + 10589 0.66 0.982955
Target:  5'- gCGACGuGAGCGGCAgcgacUCCaGcAGCGa -3'
miRNA:   3'- -GCUGCuCUCGCUGUaca--AGGcC-UUGC- -5'
23843 3' -52.3 NC_005261.1 + 97706 0.66 0.982955
Target:  5'- gGugGGGAGaCGGCggGUggcCCGG-GCGg -3'
miRNA:   3'- gCugCUCUC-GCUGuaCAa--GGCCuUGC- -5'
23843 3' -52.3 NC_005261.1 + 30084 0.66 0.980907
Target:  5'- gCGGCGcacccGGAGCG-CGUGcUCCGGGcaGCu -3'
miRNA:   3'- -GCUGC-----UCUCGCuGUACaAGGCCU--UGc -5'
23843 3' -52.3 NC_005261.1 + 32919 0.66 0.97868
Target:  5'- gCGugGGGGGCGGCGggcgGggggGGGGCGg -3'
miRNA:   3'- -GCugCUCUCGCUGUa---CaaggCCUUGC- -5'
23843 3' -52.3 NC_005261.1 + 51011 0.67 0.977255
Target:  5'- gCGGCGGGAGCucGGCGagcgccacccggcgcUGUUCCuGGAGgCGc -3'
miRNA:   3'- -GCUGCUCUCG--CUGU---------------ACAAGG-CCUU-GC- -5'
23843 3' -52.3 NC_005261.1 + 92695 0.67 0.976267
Target:  5'- gCGAgCGGGAGCGGgAgcgGgagCgGGAGCGg -3'
miRNA:   3'- -GCU-GCUCUCGCUgUa--Caa-GgCCUUGC- -5'
23843 3' -52.3 NC_005261.1 + 59792 0.67 0.976267
Target:  5'- aCGGCGGcGGGCGGCAgg--CCGGcgUGg -3'
miRNA:   3'- -GCUGCU-CUCGCUGUacaaGGCCuuGC- -5'
23843 3' -52.3 NC_005261.1 + 114303 0.67 0.97366
Target:  5'- gGACGccuuGAGCGACccGgcagUCCGGcGCa -3'
miRNA:   3'- gCUGCu---CUCGCUGuaCa---AGGCCuUGc -5'
23843 3' -52.3 NC_005261.1 + 56043 0.67 0.97085
Target:  5'- uGACGcgcgcGAGCGA--UGUUCgGGGGCGc -3'
miRNA:   3'- gCUGCu----CUCGCUguACAAGgCCUUGC- -5'
23843 3' -52.3 NC_005261.1 + 32388 0.67 0.97085
Target:  5'- gCGGCGc-GGCGGCGUc--CCGGAGCGc -3'
miRNA:   3'- -GCUGCucUCGCUGUAcaaGGCCUUGC- -5'
23843 3' -52.3 NC_005261.1 + 33609 0.67 0.964599
Target:  5'- cCGGCGcGGGCGGCggGgcCCGGGggcGCGc -3'
miRNA:   3'- -GCUGCuCUCGCUGuaCaaGGCCU---UGC- -5'
23843 3' -52.3 NC_005261.1 + 5402 0.67 0.964599
Target:  5'- -aGCGAGAGCG-CggGcgCCGcGAACGa -3'
miRNA:   3'- gcUGCUCUCGCuGuaCaaGGC-CUUGC- -5'
23843 3' -52.3 NC_005261.1 + 75402 0.68 0.961145
Target:  5'- uCGACGAGGGCG-CGgc--CCGGcGCGu -3'
miRNA:   3'- -GCUGCUCUCGCuGUacaaGGCCuUGC- -5'
23843 3' -52.3 NC_005261.1 + 17737 0.68 0.957465
Target:  5'- gCGGCGcucGGAGCgGGCGgacUUCUGGGGCGg -3'
miRNA:   3'- -GCUGC---UCUCG-CUGUac-AAGGCCUUGC- -5'
23843 3' -52.3 NC_005261.1 + 114557 0.68 0.957465
Target:  5'- uCGGCgGGGAGCGGCcgccgCCGGAucGCGu -3'
miRNA:   3'- -GCUG-CUCUCGCUGuacaaGGCCU--UGC- -5'
23843 3' -52.3 NC_005261.1 + 128880 0.68 0.957465
Target:  5'- aCGACGAG-GCGGgGg---CCGGGugGg -3'
miRNA:   3'- -GCUGCUCuCGCUgUacaaGGCCUugC- -5'
23843 3' -52.3 NC_005261.1 + 12064 0.68 0.945018
Target:  5'- cCGGCGgugcGGcAGCGGCGUccGcgCCGGGGCGg -3'
miRNA:   3'- -GCUGC----UC-UCGCUGUA--CaaGGCCUUGC- -5'
23843 3' -52.3 NC_005261.1 + 125981 0.69 0.930397
Target:  5'- gCGACGGGGGCcgcaACAUGgccUCUGGAGuCGu -3'
miRNA:   3'- -GCUGCUCUCGc---UGUACa--AGGCCUU-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.