miRNA display CGI


Results 1 - 20 of 34 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
17352 3' -42.5 NC_004367.1 + 133654 0.66 1
Target:  5'- -cUCGCcaACAGAcgUUGGCACuaacaaACGUu -3'
miRNA:   3'- guAGUGuaUGUUUuaAACCGUG------UGCG- -5'
17352 3' -42.5 NC_004367.1 + 81145 0.66 1
Target:  5'- -------aACGGAG--UGGCACACGCc -3'
miRNA:   3'- guaguguaUGUUUUaaACCGUGUGCG- -5'
17352 3' -42.5 NC_004367.1 + 75189 0.66 1
Target:  5'- uCAUUACAUGCAuuaaugugugugGGGUaagUGGgGCAUGUg -3'
miRNA:   3'- -GUAGUGUAUGU------------UUUAa--ACCgUGUGCG- -5'
17352 3' -42.5 NC_004367.1 + 51949 0.67 1
Target:  5'- --cCACGUGCGAcaGAUUUGGagaagauCACGUu -3'
miRNA:   3'- guaGUGUAUGUU--UUAAACCgu-----GUGCG- -5'
17352 3' -42.5 NC_004367.1 + 84715 0.67 1
Target:  5'- gGUCACAUcaugcGCGGAAcuuagccagaucUUUGGCACAUc- -3'
miRNA:   3'- gUAGUGUA-----UGUUUU------------AAACCGUGUGcg -5'
17352 3' -42.5 NC_004367.1 + 41196 0.66 1
Target:  5'- ---uGCAUACAAAA-UUGGCACccauauCGUu -3'
miRNA:   3'- guagUGUAUGUUUUaAACCGUGu-----GCG- -5'
17352 3' -42.5 NC_004367.1 + 11401 0.66 1
Target:  5'- -uUCACAgAUAAaccguaugcucgggGAUUUGGCcaGCGCGUg -3'
miRNA:   3'- guAGUGUaUGUU--------------UUAAACCG--UGUGCG- -5'
17352 3' -42.5 NC_004367.1 + 137928 0.68 1
Target:  5'- cCAUgGCGgACGAGGUaaaaUUGGUGuCACGCg -3'
miRNA:   3'- -GUAgUGUaUGUUUUA----AACCGU-GUGCG- -5'
17352 3' -42.5 NC_004367.1 + 131074 0.67 1
Target:  5'- uGUCuACAUACAGAAg--GGuCACACcCa -3'
miRNA:   3'- gUAG-UGUAUGUUUUaaaCC-GUGUGcG- -5'
17352 3' -42.5 NC_004367.1 + 31056 0.66 1
Target:  5'- uCAUCAgAUGCAAuacaUGGUGCAC-Ca -3'
miRNA:   3'- -GUAGUgUAUGUUuuaaACCGUGUGcG- -5'
17352 3' -42.5 NC_004367.1 + 33200 0.67 1
Target:  5'- uCAUgACGUA--AGAUUUGGUAacaGCGCc -3'
miRNA:   3'- -GUAgUGUAUguUUUAAACCGUg--UGCG- -5'
17352 3' -42.5 NC_004367.1 + 72020 0.68 1
Target:  5'- --cCAgGUGCAGGGUUcaugagauggGGCugACGCu -3'
miRNA:   3'- guaGUgUAUGUUUUAAa---------CCGugUGCG- -5'
17352 3' -42.5 NC_004367.1 + 112289 0.67 1
Target:  5'- uCAUCACAUACAcgGUUUucuaGGUguucaccAUugGCu -3'
miRNA:   3'- -GUAGUGUAUGUuuUAAA----CCG-------UGugCG- -5'
17352 3' -42.5 NC_004367.1 + 70822 0.67 1
Target:  5'- aCAUCGuCAUGaAAAAUUgaGGCGC-CGCa -3'
miRNA:   3'- -GUAGU-GUAUgUUUUAAa-CCGUGuGCG- -5'
17352 3' -42.5 NC_004367.1 + 81644 0.67 1
Target:  5'- ---uGCA-GCAAAug-UGGCACugGCc -3'
miRNA:   3'- guagUGUaUGUUUuaaACCGUGugCG- -5'
17352 3' -42.5 NC_004367.1 + 133758 0.67 1
Target:  5'- -cUCGCcaACAAAcgUUGGCACcaacaaACGUg -3'
miRNA:   3'- guAGUGuaUGUUUuaAACCGUG------UGCG- -5'
17352 3' -42.5 NC_004367.1 + 14042 0.68 0.999999
Target:  5'- gUAUUGCAUACAGGAUUcaGUACugGUu -3'
miRNA:   3'- -GUAGUGUAUGUUUUAAacCGUGugCG- -5'
17352 3' -42.5 NC_004367.1 + 9035 0.69 0.999997
Target:  5'- aAUCGCGgaccaGCGAAAUgaacuGUACACGCg -3'
miRNA:   3'- gUAGUGUa----UGUUUUAaac--CGUGUGCG- -5'
17352 3' -42.5 NC_004367.1 + 10282 0.69 0.999997
Target:  5'- cCGUCACAguaUACAAcGggUGGUAUGCGg -3'
miRNA:   3'- -GUAGUGU---AUGUUuUaaACCGUGUGCg -5'
17352 3' -42.5 NC_004367.1 + 133882 0.69 0.999994
Target:  5'- --aCACAUACAGAGcaaaaacgUUGGCAC-CaGCa -3'
miRNA:   3'- guaGUGUAUGUUUUa-------AACCGUGuG-CG- -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.