miRNA display CGI


Results 1 - 20 of 80 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
23468 3' -60 NC_005259.1 + 646 0.7 0.342742
Target:  5'- cCACCGCCGAGgaCGuGCucgAgGGCauGCUGUg -3'
miRNA:   3'- -GUGGCGGCUCaaGC-CG---UgCCG--CGACG- -5'
23468 3' -60 NC_005259.1 + 1535 0.69 0.358705
Target:  5'- uCACCggcaucaucgggGCCGcGUUCGGgGCGGUgacGCUGUg -3'
miRNA:   3'- -GUGG------------CGGCuCAAGCCgUGCCG---CGACG- -5'
23468 3' -60 NC_005259.1 + 1889 0.71 0.290969
Target:  5'- gGCCGCCGAGaUC-GCGCGa-GCUGCc -3'
miRNA:   3'- gUGGCGGCUCaAGcCGUGCcgCGACG- -5'
23468 3' -60 NC_005259.1 + 2123 0.71 0.297268
Target:  5'- aCGCuCGCCGAGgucaCGcagacccGCACGGUGCUGg -3'
miRNA:   3'- -GUG-GCGGCUCaa--GC-------CGUGCCGCGACg -5'
23468 3' -60 NC_005259.1 + 2179 0.71 0.278016
Target:  5'- gGuuGCCGAGgucaugggccgcuaCGGCAaGGUGCUGCg -3'
miRNA:   3'- gUggCGGCUCaa------------GCCGUgCCGCGACG- -5'
23468 3' -60 NC_005259.1 + 3288 0.72 0.233669
Target:  5'- uCGCCGCCucgccGGUcccUCGGCGa-GCGCUGCg -3'
miRNA:   3'- -GUGGCGGc----UCA---AGCCGUgcCGCGACG- -5'
23468 3' -60 NC_005259.1 + 4505 0.71 0.264239
Target:  5'- cCACCgcGCCGGGagUGGCGCuGCGCgGCa -3'
miRNA:   3'- -GUGG--CGGCUCaaGCCGUGcCGCGaCG- -5'
23468 3' -60 NC_005259.1 + 4653 0.67 0.499742
Target:  5'- gCACCGCgccuacgGGCACGGUGuCUGCa -3'
miRNA:   3'- -GUGGCGgcucaagCCGUGCCGC-GACG- -5'
23468 3' -60 NC_005259.1 + 4976 0.75 0.14355
Target:  5'- -uCCGCCGAGUUCGGCcgAUGGCcggGCa -3'
miRNA:   3'- guGGCGGCUCAAGCCG--UGCCGcgaCG- -5'
23468 3' -60 NC_005259.1 + 5645 0.67 0.484075
Target:  5'- -cCCGgCGAGgaCGGCG-GGCGCUacacGCg -3'
miRNA:   3'- guGGCgGCUCaaGCCGUgCCGCGA----CG- -5'
23468 3' -60 NC_005259.1 + 6431 0.69 0.350659
Target:  5'- -cUCGCCGAugUCGGCACcgucGCGCUGa -3'
miRNA:   3'- guGGCGGCUcaAGCCGUGc---CGCGACg -5'
23468 3' -60 NC_005259.1 + 7026 0.67 0.455356
Target:  5'- -cCCGCCGAGcgcccCGGCGgGGUuuuucGUUGCg -3'
miRNA:   3'- guGGCGGCUCaa---GCCGUgCCG-----CGACG- -5'
23468 3' -60 NC_005259.1 + 7179 0.7 0.30511
Target:  5'- gCACCGgCGAGUgccCGGCcuGCGGacgcaccggGCUGCg -3'
miRNA:   3'- -GUGGCgGCUCAa--GCCG--UGCCg--------CGACG- -5'
23468 3' -60 NC_005259.1 + 8064 0.66 0.554127
Target:  5'- uCGCCGCCGAcaUCGagaucgugccGCGCuGGCGUgaccgUGCg -3'
miRNA:   3'- -GUGGCGGCUcaAGC----------CGUG-CCGCG-----ACG- -5'
23468 3' -60 NC_005259.1 + 9823 0.73 0.200968
Target:  5'- gCACCGCCGGGU-----GCGGCGCUGg -3'
miRNA:   3'- -GUGGCGGCUCAagccgUGCCGCGACg -5'
23468 3' -60 NC_005259.1 + 11930 0.66 0.523652
Target:  5'- aCACCGCCGccuuuucccGUUCGcGCAgccCGGCGa-GCa -3'
miRNA:   3'- -GUGGCGGCu--------CAAGC-CGU---GCCGCgaCG- -5'
23468 3' -60 NC_005259.1 + 13428 0.82 0.051035
Target:  5'- uCGCCGCCGGggccgcgcuaggcGUgaccgUCGGCGCGGCGCUGg -3'
miRNA:   3'- -GUGGCGGCU-------------CA-----AGCCGUGCCGCGACg -5'
23468 3' -60 NC_005259.1 + 16207 0.67 0.503695
Target:  5'- -cCCGCCuGAGUUCcugaucaggugGGCcgaacgcacccCGGUGCUGCg -3'
miRNA:   3'- guGGCGG-CUCAAG-----------CCGu----------GCCGCGACG- -5'
23468 3' -60 NC_005259.1 + 16505 0.68 0.418549
Target:  5'- gCAUgGCCGAGa---GCGaGGCGCUGCg -3'
miRNA:   3'- -GUGgCGGCUCaagcCGUgCCGCGACG- -5'
23468 3' -60 NC_005259.1 + 17350 0.83 0.044541
Target:  5'- uCGCCGUCGAGgUCGGCGgcuCGGCGCUGg -3'
miRNA:   3'- -GUGGCGGCUCaAGCCGU---GCCGCGACg -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.