miRNA display CGI


Results 1 - 20 of 69 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
31000 5' -57 NC_006560.1 + 138052 1.12 0.001584
Target:  5'- gCUCCUCGGUACGCGAUGAGCGCCUCCg -3'
miRNA:   3'- -GAGGAGCCAUGCGCUACUCGCGGAGG- -5'
31000 5' -57 NC_006560.1 + 133171 0.8 0.222751
Target:  5'- gUCCUCGG-AgGCGGUGAGgGCgUCCg -3'
miRNA:   3'- gAGGAGCCaUgCGCUACUCgCGgAGG- -5'
31000 5' -57 NC_006560.1 + 31120 0.79 0.233705
Target:  5'- -gCCUCGG-GCGCcggGGGCGCCUCCg -3'
miRNA:   3'- gaGGAGCCaUGCGcuaCUCGCGGAGG- -5'
31000 5' -57 NC_006560.1 + 93933 0.77 0.322646
Target:  5'- gCUCCUCGaGUacgcgcaGCGCGAgggcGAGCGCCUgCu -3'
miRNA:   3'- -GAGGAGC-CA-------UGCGCUa---CUCGCGGAgG- -5'
31000 5' -57 NC_006560.1 + 139317 0.75 0.385136
Target:  5'- -gCCUCGG-GCGCGGgagaggcGGGCGCCUCg -3'
miRNA:   3'- gaGGAGCCaUGCGCUa------CUCGCGGAGg -5'
31000 5' -57 NC_006560.1 + 147200 0.75 0.40175
Target:  5'- cCUCCcccgcCGGagGCGCGGggggccgGGGCGCCUCCc -3'
miRNA:   3'- -GAGGa----GCCa-UGCGCUa------CUCGCGGAGG- -5'
31000 5' -57 NC_006560.1 + 135165 0.74 0.472518
Target:  5'- gUCC-CGGUGCGCGGUGgcguugagcagGGCGCCg-- -3'
miRNA:   3'- gAGGaGCCAUGCGCUAC-----------UCGCGGagg -5'
31000 5' -57 NC_006560.1 + 65943 0.72 0.588777
Target:  5'- gUCCggccgccagCGGUacaggcgggcgGCGCGGUGcGGCGCCUCg -3'
miRNA:   3'- gAGGa--------GCCA-----------UGCGCUAC-UCGCGGAGg -5'
31000 5' -57 NC_006560.1 + 9147 0.71 0.598803
Target:  5'- gUCUUCGGcgACGcCGAUGggaacgucgGGCGCCUCg -3'
miRNA:   3'- gAGGAGCCa-UGC-GCUAC---------UCGCGGAGg -5'
31000 5' -57 NC_006560.1 + 12344 0.71 0.618919
Target:  5'- -aCCUCGGggcugGCGgGgcGGGCGUCUCg -3'
miRNA:   3'- gaGGAGCCa----UGCgCuaCUCGCGGAGg -5'
31000 5' -57 NC_006560.1 + 3297 0.71 0.639073
Target:  5'- -gCCgggCGGgcggGCGGUGAGCGCCgcgggCCg -3'
miRNA:   3'- gaGGa--GCCaug-CGCUACUCGCGGa----GG- -5'
31000 5' -57 NC_006560.1 + 131552 0.71 0.649146
Target:  5'- -aCCUggCGGUcUGCGGgaacgaGGGCGCCUCCc -3'
miRNA:   3'- gaGGA--GCCAuGCGCUa-----CUCGCGGAGG- -5'
31000 5' -57 NC_006560.1 + 7078 0.7 0.669245
Target:  5'- -aCCUCGcGgccCGCGAgaccGCGCCUCCu -3'
miRNA:   3'- gaGGAGC-Cau-GCGCUacu-CGCGGAGG- -5'
31000 5' -57 NC_006560.1 + 136591 0.7 0.679255
Target:  5'- uCUCCUCgcacaaggaGGUgaGCGCcuacAUGGcGCGCCUCCa -3'
miRNA:   3'- -GAGGAG---------CCA--UGCGc---UACU-CGCGGAGG- -5'
31000 5' -57 NC_006560.1 + 34995 0.7 0.689227
Target:  5'- -gCCUCGGggcCGCGGgccggccGGGCGCCcccUCCg -3'
miRNA:   3'- gaGGAGCCau-GCGCUa------CUCGCGG---AGG- -5'
31000 5' -57 NC_006560.1 + 125516 0.7 0.709025
Target:  5'- cCUCCgcgcCGGc-CGCGGUGcGCGCCgCCg -3'
miRNA:   3'- -GAGGa---GCCauGCGCUACuCGCGGaGG- -5'
31000 5' -57 NC_006560.1 + 76687 0.7 0.709025
Target:  5'- gCUUCgggCGaGUGCGCGG-GGGCGCCUg- -3'
miRNA:   3'- -GAGGa--GC-CAUGCGCUaCUCGCGGAgg -5'
31000 5' -57 NC_006560.1 + 92473 0.69 0.718833
Target:  5'- cCUCCUcCGGccCGUGAUGGccgcGCGCC-CCa -3'
miRNA:   3'- -GAGGA-GCCauGCGCUACU----CGCGGaGG- -5'
31000 5' -57 NC_006560.1 + 17815 0.69 0.737263
Target:  5'- uUCCUCGGUcgcgcccgcguagACGCGGcgGAGCugucgGCCggCCa -3'
miRNA:   3'- gAGGAGCCA-------------UGCGCUa-CUCG-----CGGa-GG- -5'
31000 5' -57 NC_006560.1 + 15354 0.69 0.761016
Target:  5'- -gCCggGGU-CGCGGUGAGgccgggacuccccccCGCCUCCu -3'
miRNA:   3'- gaGGagCCAuGCGCUACUC---------------GCGGAGG- -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.