miRNA display CGI


Results 1 - 20 of 33 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
24314 3' -49.2 NC_005263.2 + 3251 0.68 0.885773
Target:  5'- gCGcGAuCGCCgCGCAgacAGGCGUCGAGuAUCg -3'
miRNA:   3'- -GC-CU-GCGGaGCGU---UCUGUAGUUU-UAG- -5'
24314 3' -49.2 NC_005263.2 + 3619 0.67 0.907945
Target:  5'- uCGGGCGCCU-GCGGGcCGUagcAAUCg -3'
miRNA:   3'- -GCCUGCGGAgCGUUCuGUAguuUUAG- -5'
24314 3' -49.2 NC_005263.2 + 4660 0.74 0.580015
Target:  5'- aCGGGCagGCCggcgCGCGGGucuuuCGUCAGGAUCg -3'
miRNA:   3'- -GCCUG--CGGa---GCGUUCu----GUAGUUUUAG- -5'
24314 3' -49.2 NC_005263.2 + 6763 0.66 0.953656
Target:  5'- uCGcGCGCCggGCGAGcucggccuCGUCGAAGUCg -3'
miRNA:   3'- -GCcUGCGGagCGUUCu-------GUAGUUUUAG- -5'
24314 3' -49.2 NC_005263.2 + 8027 0.67 0.927388
Target:  5'- -uGAUGUCUUGCGAGGCGUCc----- -3'
miRNA:   3'- gcCUGCGGAGCGUUCUGUAGuuuuag -5'
24314 3' -49.2 NC_005263.2 + 8274 0.7 0.773438
Target:  5'- uCGGACgGCCacagCGCGAGcgGCGUCGgucGGAUCg -3'
miRNA:   3'- -GCCUG-CGGa---GCGUUC--UGUAGU---UUUAG- -5'
24314 3' -49.2 NC_005263.2 + 9796 0.68 0.877797
Target:  5'- gGGGCGCCUCGCcgcgugcGGCAUagccuUCg -3'
miRNA:   3'- gCCUGCGGAGCGuu-----CUGUAguuuuAG- -5'
24314 3' -49.2 NC_005263.2 + 10657 0.66 0.944061
Target:  5'- aUGGACGCCgCGCA-GACcgCGc---- -3'
miRNA:   3'- -GCCUGCGGaGCGUuCUGuaGUuuuag -5'
24314 3' -49.2 NC_005263.2 + 10778 0.66 0.93881
Target:  5'- uGGaACGCaUCGCccucGACAUCGAcGUCg -3'
miRNA:   3'- gCC-UGCGgAGCGuu--CUGUAGUUuUAG- -5'
24314 3' -49.2 NC_005263.2 + 11777 0.67 0.905144
Target:  5'- uCGGGCGgUgcauaucgcauggCGCAGGACGUCGcguGUCg -3'
miRNA:   3'- -GCCUGCgGa------------GCGUUCUGUAGUuu-UAG- -5'
24314 3' -49.2 NC_005263.2 + 11901 0.7 0.804542
Target:  5'- cCGGGCGCCUgCGCGcuGGCGUCc----- -3'
miRNA:   3'- -GCCUGCGGA-GCGUu-CUGUAGuuuuag -5'
24314 3' -49.2 NC_005263.2 + 12147 0.69 0.824293
Target:  5'- gCGGucgaGCGCCUUGCAcGcaGCGUCAAcGAUCg -3'
miRNA:   3'- -GCC----UGCGGAGCGUuC--UGUAGUU-UUAG- -5'
24314 3' -49.2 NC_005263.2 + 13220 0.72 0.695789
Target:  5'- aGGcgugaGCGCCUgCGCGAGGucCAUCAAGAUg -3'
miRNA:   3'- gCC-----UGCGGA-GCGUUCU--GUAGUUUUAg -5'
24314 3' -49.2 NC_005263.2 + 14048 0.7 0.794359
Target:  5'- aCGGGCGCCgCGuCGAGcGCAUUGAGcgCg -3'
miRNA:   3'- -GCCUGCGGaGC-GUUC-UGUAGUUUuaG- -5'
24314 3' -49.2 NC_005263.2 + 14225 0.66 0.944061
Target:  5'- aUGGuuACGCCUUGUucAGGAUAUCucguguGAUCa -3'
miRNA:   3'- -GCC--UGCGGAGCG--UUCUGUAGuu----UUAG- -5'
24314 3' -49.2 NC_005263.2 + 17337 0.73 0.637985
Target:  5'- cCGGugGCUUCGaCGuucGGCAUCGcgGUCg -3'
miRNA:   3'- -GCCugCGGAGC-GUu--CUGUAGUuuUAG- -5'
24314 3' -49.2 NC_005263.2 + 18511 0.67 0.907945
Target:  5'- --aACGCCUCGCGAucggcGGCGUCGAc--- -3'
miRNA:   3'- gccUGCGGAGCGUU-----CUGUAGUUuuag -5'
24314 3' -49.2 NC_005263.2 + 19085 0.67 0.914733
Target:  5'- uGGuGCGUCUUGCAGGGCuggcCGAuGUCg -3'
miRNA:   3'- gCC-UGCGGAGCGUUCUGua--GUUuUAG- -5'
24314 3' -49.2 NC_005263.2 + 20426 0.67 0.927388
Target:  5'- aGGGCGCg-CGCAGGAauggaugauCGUCAAacuGAUCc -3'
miRNA:   3'- gCCUGCGgaGCGUUCU---------GUAGUU---UUAG- -5'
24314 3' -49.2 NC_005263.2 + 20793 0.66 0.933253
Target:  5'- gGGGCGCCgaCGCAAuGgGUCAAGuUCc -3'
miRNA:   3'- gCCUGCGGa-GCGUUcUgUAGUUUuAG- -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.