miRNA display CGI


Results 1 - 20 of 23 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
16582 5' -47.7 NC_004117.1 + 57925 0.66 0.999803
Target:  5'- gGACAgCAUCGAGGCgaacgugACCUACGcCUGg -3'
miRNA:   3'- gCUGU-GUAGUUUUG-------UGGGUGCuGAUa -5'
16582 5' -47.7 NC_004117.1 + 78823 0.66 0.999753
Target:  5'- aCGACGacggUAUCcacuGGAACGCCUACGACc-- -3'
miRNA:   3'- -GCUGU----GUAG----UUUUGUGGGUGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 60906 0.66 0.999753
Target:  5'- uGACGCGUCu-GACugCCGaGAUUGUu -3'
miRNA:   3'- gCUGUGUAGuuUUGugGGUgCUGAUA- -5'
16582 5' -47.7 NC_004117.1 + 44070 0.66 0.999686
Target:  5'- cCGACGCAUCGAAACGaagUUCGUGACa-- -3'
miRNA:   3'- -GCUGUGUAGUUUUGU---GGGUGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 13469 0.67 0.999049
Target:  5'- gCGACGCaAUCAcguuugcccauAGCACCgCAUGGCUAa -3'
miRNA:   3'- -GCUGUG-UAGUu----------UUGUGG-GUGCUGAUa -5'
16582 5' -47.7 NC_004117.1 + 74174 0.67 0.998836
Target:  5'- aCGAuCGCGUCGAAGCGCagCAUGAUg-- -3'
miRNA:   3'- -GCU-GUGUAGUUUUGUGg-GUGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 10747 0.68 0.998285
Target:  5'- cCGAUAaagaugugCAAGugACUCGCGACUGUg -3'
miRNA:   3'- -GCUGUgua-----GUUUugUGGGUGCUGAUA- -5'
16582 5' -47.7 NC_004117.1 + 103919 0.68 0.997936
Target:  5'- cCGACACGUCgAAAGCGCCauCGGCc-- -3'
miRNA:   3'- -GCUGUGUAG-UUUUGUGGguGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 61073 0.68 0.997936
Target:  5'- aGACGCGUCAAuGAUugUCACGAg--- -3'
miRNA:   3'- gCUGUGUAGUU-UUGugGGUGCUgaua -5'
16582 5' -47.7 NC_004117.1 + 103847 0.68 0.997529
Target:  5'- gGGCAgAcUCGAAACACCCGucggGACUGUu -3'
miRNA:   3'- gCUGUgU-AGUUUUGUGGGUg---CUGAUA- -5'
16582 5' -47.7 NC_004117.1 + 4229 0.68 0.997057
Target:  5'- --cCACAUCAAAACAaUCACGugUAUu -3'
miRNA:   3'- gcuGUGUAGUUUUGUgGGUGCugAUA- -5'
16582 5' -47.7 NC_004117.1 + 35571 0.68 0.996514
Target:  5'- -uGCAUAUCGAcgacAACACCgGCGGCUc- -3'
miRNA:   3'- gcUGUGUAGUU----UUGUGGgUGCUGAua -5'
16582 5' -47.7 NC_004117.1 + 58879 0.69 0.995889
Target:  5'- aCGGCACAUCAuuaacauaguGGACAgaCACGACa-- -3'
miRNA:   3'- -GCUGUGUAGU----------UUUGUggGUGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 32722 0.69 0.995822
Target:  5'- uGACGCAUCAGAuagcacaGCACCaaaguaggcgauCGCGACa-- -3'
miRNA:   3'- gCUGUGUAGUUU-------UGUGG------------GUGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 92750 0.69 0.994367
Target:  5'- uGACACGUguc-GCACCUACGGCa-- -3'
miRNA:   3'- gCUGUGUAguuuUGUGGGUGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 45913 0.7 0.988531
Target:  5'- aUGAU-CAUCgAAGACGCUCAUGACUAUu -3'
miRNA:   3'- -GCUGuGUAG-UUUUGUGGGUGCUGAUA- -5'
16582 5' -47.7 NC_004117.1 + 151560 0.71 0.978821
Target:  5'- ---gGCAUCAAcAACACCUACGACg-- -3'
miRNA:   3'- gcugUGUAGUU-UUGUGGGUGCUGaua -5'
16582 5' -47.7 NC_004117.1 + 51292 0.71 0.978821
Target:  5'- aCGACAC-UCGAAGCGCgCACGcAUUAa -3'
miRNA:   3'- -GCUGUGuAGUUUUGUGgGUGC-UGAUa -5'
16582 5' -47.7 NC_004117.1 + 137678 0.72 0.967459
Target:  5'- gGGCACA-CAuuACgGCCCACGACUu- -3'
miRNA:   3'- gCUGUGUaGUuuUG-UGGGUGCUGAua -5'
16582 5' -47.7 NC_004117.1 + 123546 0.73 0.947923
Target:  5'- uCGACGCGUCG--ACACUUACGACc-- -3'
miRNA:   3'- -GCUGUGUAGUuuUGUGGGUGCUGaua -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.