miRNA display CGI


Results 1 - 20 of 25 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
27936 5' -54.6 NC_005886.2 + 43372 0.66 0.694363
Target:  5'- -cGGUAUuuuuugCGAAGAUGGCGcaAGuCGCAc -3'
miRNA:   3'- gaCCGUGua----GCUUCUGCCGU--UC-GCGU- -5'
27936 5' -54.6 NC_005886.2 + 3857 0.66 0.683225
Target:  5'- aCUGGCGuCGUUGuGGAaGGCGGGgGCc -3'
miRNA:   3'- -GACCGU-GUAGCuUCUgCCGUUCgCGu -5'
27936 5' -54.6 NC_005886.2 + 38966 0.66 0.660806
Target:  5'- --aGCGCAUCGAAgcGAUGGCGcgAGCGa- -3'
miRNA:   3'- gacCGUGUAGCUU--CUGCCGU--UCGCgu -5'
27936 5' -54.6 NC_005886.2 + 37121 0.66 0.660806
Target:  5'- -cGGCGauCGcUGAAG-CGGCAGGCGUg -3'
miRNA:   3'- gaCCGU--GUaGCUUCuGCCGUUCGCGu -5'
27936 5' -54.6 NC_005886.2 + 17569 0.67 0.626996
Target:  5'- aUGGCACGUUGcaauccguGACGcCGGGUGCAg -3'
miRNA:   3'- gACCGUGUAGCuu------CUGCcGUUCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 3218 0.67 0.615721
Target:  5'- gUGGCACGUCGGcuucauCGGgAAGCGg- -3'
miRNA:   3'- gACCGUGUAGCUucu---GCCgUUCGCgu -5'
27936 5' -54.6 NC_005886.2 + 35232 0.67 0.614594
Target:  5'- gUGGUucgaacguacacGCGUUGAguuucgcGGGCGGCGuGCGCAc -3'
miRNA:   3'- gACCG------------UGUAGCU-------UCUGCCGUuCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 28735 0.67 0.593226
Target:  5'- gUGGCGuCGucUCGAuccaauCGGUAGGCGCAa -3'
miRNA:   3'- gACCGU-GU--AGCUucu---GCCGUUCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 16268 0.68 0.537747
Target:  5'- -cGGCGCGUaaccCGGcAGGCGGUAcaauacaagGGCGCAc -3'
miRNA:   3'- gaCCGUGUA----GCU-UCUGCCGU---------UCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 13459 0.69 0.526849
Target:  5'- aCUGG---AUCGAAGuCGGCcGGCGCGu -3'
miRNA:   3'- -GACCgugUAGCUUCuGCCGuUCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 29734 0.69 0.526849
Target:  5'- -gGGCAU-UCGggGuGCGGCGAG-GCAu -3'
miRNA:   3'- gaCCGUGuAGCuuC-UGCCGUUCgCGU- -5'
27936 5' -54.6 NC_005886.2 + 17819 0.69 0.520351
Target:  5'- -gGGCgugcguucacguacaACAaCGAcggcaAGACGGUAGGCGCAg -3'
miRNA:   3'- gaCCG---------------UGUaGCU-----UCUGCCGUUCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 36317 0.69 0.516035
Target:  5'- -cGGCgGCAUCGGcggcacGGGCGGCAcgGGCGg- -3'
miRNA:   3'- gaCCG-UGUAGCU------UCUGCCGU--UCGCgu -5'
27936 5' -54.6 NC_005886.2 + 22186 0.69 0.494686
Target:  5'- uCUGGCGCAa-GAAGACGGUAgaAGC-CGu -3'
miRNA:   3'- -GACCGUGUagCUUCUGCCGU--UCGcGU- -5'
27936 5' -54.6 NC_005886.2 + 43477 0.69 0.473747
Target:  5'- aUGGCGacggaAUCGAcgcGGAUGGCAAGC-CGa -3'
miRNA:   3'- gACCGUg----UAGCU---UCUGCCGUUCGcGU- -5'
27936 5' -54.6 NC_005886.2 + 35825 0.7 0.463445
Target:  5'- -gGGCAUgAUCGAAGAucaugaauuCGGCAcGGUGCAa -3'
miRNA:   3'- gaCCGUG-UAGCUUCU---------GCCGU-UCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 24225 0.7 0.443203
Target:  5'- -cGGCACAcUUGGAGaACGcGCAAGCGg- -3'
miRNA:   3'- gaCCGUGU-AGCUUC-UGC-CGUUCGCgu -5'
27936 5' -54.6 NC_005886.2 + 37094 0.7 0.443203
Target:  5'- -cGGCAggacuCGUCGgcGucuacuuCGGCAAGCGCGc -3'
miRNA:   3'- gaCCGU-----GUAGCuuCu------GCCGUUCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 41962 0.72 0.350092
Target:  5'- -cGGCg---CGggGGCGGCGuccGGCGCAg -3'
miRNA:   3'- gaCCGuguaGCuuCUGCCGU---UCGCGU- -5'
27936 5' -54.6 NC_005886.2 + 29910 0.72 0.325007
Target:  5'- aUGcGCGCAUgGGAaaacGACGaGCAAGCGCGa -3'
miRNA:   3'- gAC-CGUGUAgCUU----CUGC-CGUUCGCGU- -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.