miRNA display CGI


Results 1 - 20 of 21 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
27139 5' -59.3 NC_005832.1 + 65994 0.66 0.69252
Target:  5'- uCCCgUCCUC-CCGgucaGGAGGGacuGGACAUg -3'
miRNA:   3'- cGGG-AGGAGuGGCa---CCUCUC---CCUGUA- -5'
27139 5' -59.3 NC_005832.1 + 89325 0.66 0.691505
Target:  5'- uGCCCuuucggucUCCUCACCGUuccguggGGAGAGuuugcaGACGUc -3'
miRNA:   3'- -CGGG--------AGGAGUGGCA-------CCUCUCc-----CUGUA- -5'
27139 5' -59.3 NC_005832.1 + 32347 0.66 0.682349
Target:  5'- uUCCaUCCcCGCCGgggcUGGAGGGGGAUc- -3'
miRNA:   3'- cGGG-AGGaGUGGC----ACCUCUCCCUGua -5'
27139 5' -59.3 NC_005832.1 + 28088 0.66 0.672135
Target:  5'- gGCCCUUU--GCCGUGGAGGuuGcGGGCGg -3'
miRNA:   3'- -CGGGAGGagUGGCACCUCU--C-CCUGUa -5'
27139 5' -59.3 NC_005832.1 + 95051 0.66 0.641333
Target:  5'- -aCC-CCUCACCGccGGGGcAGGGGCc- -3'
miRNA:   3'- cgGGaGGAGUGGCa-CCUC-UCCCUGua -5'
27139 5' -59.3 NC_005832.1 + 80826 0.67 0.600196
Target:  5'- cCCCUCCaggGCCcUGGAG-GGGACGg -3'
miRNA:   3'- cGGGAGGag-UGGcACCUCuCCCUGUa -5'
27139 5' -59.3 NC_005832.1 + 67657 0.67 0.600196
Target:  5'- gGCCCaaaCCgguCCGUgacaggGGGGAGGGACAg -3'
miRNA:   3'- -CGGGa--GGaguGGCA------CCUCUCCCUGUa -5'
27139 5' -59.3 NC_005832.1 + 1371 0.67 0.589953
Target:  5'- uGCCCcUCUCGCCGUGGuccGGGuCGa -3'
miRNA:   3'- -CGGGaGGAGUGGCACCucuCCCuGUa -5'
27139 5' -59.3 NC_005832.1 + 20529 0.68 0.569566
Target:  5'- aCCCUCCUCugagggcccCCGUGGAcccucuGGGaGGACGg -3'
miRNA:   3'- cGGGAGGAGu--------GGCACCU------CUC-CCUGUa -5'
27139 5' -59.3 NC_005832.1 + 52244 0.68 0.569566
Target:  5'- aCCCUCCUC-CCcUGGAGGcgacgcugucuGGGAUAg -3'
miRNA:   3'- cGGGAGGAGuGGcACCUCU-----------CCCUGUa -5'
27139 5' -59.3 NC_005832.1 + 16982 0.68 0.539335
Target:  5'- uGCCCUCaUCACCGgGGAcGAGaGGCAg -3'
miRNA:   3'- -CGGGAGgAGUGGCaCCU-CUCcCUGUa -5'
27139 5' -59.3 NC_005832.1 + 32278 0.68 0.5185
Target:  5'- cGCuCCUCCggccaugauguugUCuGCCGUGGugAGGGGGGCGa -3'
miRNA:   3'- -CG-GGAGG-------------AG-UGGCACC--UCUCCCUGUa -5'
27139 5' -59.3 NC_005832.1 + 94014 0.69 0.480708
Target:  5'- uCCCU-CUCGCCG-GGAcGAGGGGCc- -3'
miRNA:   3'- cGGGAgGAGUGGCaCCU-CUCCCUGua -5'
27139 5' -59.3 NC_005832.1 + 66123 0.69 0.480708
Target:  5'- uCCCUCCUgACCG-GGAGGacGGGAa-- -3'
miRNA:   3'- cGGGAGGAgUGGCaCCUCU--CCCUgua -5'
27139 5' -59.3 NC_005832.1 + 39470 0.69 0.46092
Target:  5'- gGCCCUggUCGCCGUcguccccGGGGGGGGuCAUg -3'
miRNA:   3'- -CGGGAggAGUGGCA-------CCUCUCCCuGUA- -5'
27139 5' -59.3 NC_005832.1 + 53854 0.7 0.452572
Target:  5'- -aCCUCCcgcucacggCACCGccagGGAGAGGGGCu- -3'
miRNA:   3'- cgGGAGGa--------GUGGCa---CCUCUCCCUGua -5'
27139 5' -59.3 NC_005832.1 + 55678 0.7 0.443394
Target:  5'- cGUCCUCCgagaugucUCcuGCCGUGGGGAcuGGGACu- -3'
miRNA:   3'- -CGGGAGG--------AG--UGGCACCUCU--CCCUGua -5'
27139 5' -59.3 NC_005832.1 + 82024 0.7 0.407766
Target:  5'- cGCuCCUUCUCuGCCGUGGcaaAGGGGCAc -3'
miRNA:   3'- -CG-GGAGGAG-UGGCACCuc-UCCCUGUa -5'
27139 5' -59.3 NC_005832.1 + 43439 0.71 0.399143
Target:  5'- aUCCUCCgccCcCCGaGGAGAGGGAUAUa -3'
miRNA:   3'- cGGGAGGa--GuGGCaCCUCUCCCUGUA- -5'
27139 5' -59.3 NC_005832.1 + 89488 0.71 0.382251
Target:  5'- uGgCCUCCaUCACCuugGGAGGGGGcACGUa -3'
miRNA:   3'- -CgGGAGG-AGUGGca-CCUCUCCC-UGUA- -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.