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
28221 3' -45.8 NC_005891.1 + 37154 0.66 0.990269
Target:  5'- gCCuAGUagu-GGCGacgGCUAGACGGCg -3'
miRNA:   3'- aGGuUCGguuuCUGUa--UGAUUUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 33342 0.66 0.98693
Target:  5'- cCCGcacuGCCAAAGGCAacaccucuCUucacAGCGGCg -3'
miRNA:   3'- aGGUu---CGGUUUCUGUau------GAu---UUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 8563 0.66 0.98693
Target:  5'- aCCcuGCCAGAcGACAUAUcAGACGcuuuGCg -3'
miRNA:   3'- aGGuuCGGUUU-CUGUAUGaUUUGC----CG- -5'
28221 3' -45.8 NC_005891.1 + 33635 0.67 0.982771
Target:  5'- gUUCGGGUCAAGGACA-ACUGGauuuucaccACGGa -3'
miRNA:   3'- -AGGUUCGGUUUCUGUaUGAUU---------UGCCg -5'
28221 3' -45.8 NC_005891.1 + 36133 0.67 0.977686
Target:  5'- cUguAGCCAu---CAUGCUcGACGGCu -3'
miRNA:   3'- aGguUCGGUuucuGUAUGAuUUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 2007 0.67 0.977686
Target:  5'- gCCGAcGCagaGAAGGC-UAUUGAgcGCGGCg -3'
miRNA:   3'- aGGUU-CGg--UUUCUGuAUGAUU--UGCCG- -5'
28221 3' -45.8 NC_005891.1 + 28953 0.68 0.960273
Target:  5'- gUCCAAG-CAGAGAuuuCGUACU---CGGCu -3'
miRNA:   3'- -AGGUUCgGUUUCU---GUAUGAuuuGCCG- -5'
28221 3' -45.8 NC_005891.1 + 5248 0.68 0.951213
Target:  5'- cCUAAGCCAGAcccuGCcgAUgAAACGGCg -3'
miRNA:   3'- aGGUUCGGUUUc---UGuaUGaUUUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 3432 0.69 0.946203
Target:  5'- gCCAucauuaagaaGGCCAAAGAagccaGUAaccAAGCGGCg -3'
miRNA:   3'- aGGU----------UCGGUUUCUg----UAUga-UUUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 10291 0.69 0.940866
Target:  5'- gUCGGGCCAGuGAUAUugUGGACaGGa -3'
miRNA:   3'- aGGUUCGGUUuCUGUAugAUUUG-CCg -5'
28221 3' -45.8 NC_005891.1 + 19504 0.71 0.88622
Target:  5'- gUCCAGGCgGAAcauuGACAUuuaauGGCGGCg -3'
miRNA:   3'- -AGGUUCGgUUU----CUGUAugau-UUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 20841 0.72 0.851247
Target:  5'- gUCCAAGCCAAcuGC--GCUGGuucACGGUa -3'
miRNA:   3'- -AGGUUCGGUUucUGuaUGAUU---UGCCG- -5'
28221 3' -45.8 NC_005891.1 + 26482 0.72 0.851247
Target:  5'- gCCAAGgCAAuuGACAcGCgcGGCGGCg -3'
miRNA:   3'- aGGUUCgGUUu-CUGUaUGauUUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 10818 0.72 0.811845
Target:  5'- gUUCAAGuCCAAGGAUGUgGCggcGGCGGCg -3'
miRNA:   3'- -AGGUUC-GGUUUCUGUA-UGau-UUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 5512 0.73 0.801392
Target:  5'- uUCCAAGUUAAAGA---AC-AGACGGCa -3'
miRNA:   3'- -AGGUUCGGUUUCUguaUGaUUUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 18227 0.73 0.779858
Target:  5'- aUCCGgcgcaauacucuGGCCGGAGACAUcgcauuauaGCUu-GCGGCc -3'
miRNA:   3'- -AGGU------------UCGGUUUCUGUA---------UGAuuUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 18970 0.73 0.768805
Target:  5'- aUCCaAAGCUuagggucGGACAUGCUGcGCGGUu -3'
miRNA:   3'- -AGG-UUCGGuu-----UCUGUAUGAUuUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 32403 0.74 0.746204
Target:  5'- aUCCAAGCCGAAGcuGCuauUGCUAAAgacaaGGUa -3'
miRNA:   3'- -AGGUUCGGUUUC--UGu--AUGAUUUg----CCG- -5'
28221 3' -45.8 NC_005891.1 + 38683 0.76 0.627222
Target:  5'- -aCAAGCCaAAAGGCAU---GAGCGGCa -3'
miRNA:   3'- agGUUCGG-UUUCUGUAugaUUUGCCG- -5'
28221 3' -45.8 NC_005891.1 + 10875 0.76 0.603044
Target:  5'- aCCGAGCUAAcGGGCGgcgGCgguGGCGGCg -3'
miRNA:   3'- aGGUUCGGUU-UCUGUa--UGau-UUGCCG- -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.