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
27997 3' -53.7 NC_005887.1 + 16093 0.77 0.178736
Target:  5'- aCAUGG-CCGGuggugaAACGCUUUCCGGUGGCg -3'
miRNA:   3'- -GUACUaGGCC------UUGCGGAAGGUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 26334 0.66 0.738148
Target:  5'- cCGUGG-CCGG--CGCUggCCGGguGCg -3'
miRNA:   3'- -GUACUaGGCCuuGCGGaaGGUCguCG- -5'
27997 3' -53.7 NC_005887.1 + 17873 0.66 0.735975
Target:  5'- aCGUGGgcCCGGAAccugucCGCCgcgacgaugaagUUCGGCGGCg -3'
miRNA:   3'- -GUACUa-GGCCUU------GCGGa-----------AGGUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 32419 0.66 0.72724
Target:  5'- aCGUGG-CCGGcGGCGauguggCCGGCGGCg -3'
miRNA:   3'- -GUACUaGGCC-UUGCggaa--GGUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 2169 0.67 0.682722
Target:  5'- gCAUGGacUUCGGccuGACGCCggCCgcggugaucgGGCAGCg -3'
miRNA:   3'- -GUACU--AGGCC---UUGCGGaaGG----------UCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 24949 0.67 0.660104
Target:  5'- gCGUGcgCgCGGGcCGCCUUgCGcGCGGCc -3'
miRNA:   3'- -GUACuaG-GCCUuGCGGAAgGU-CGUCG- -5'
27997 3' -53.7 NC_005887.1 + 34671 0.67 0.625996
Target:  5'- ----uUCCGGAucCGCCacguugUCgAGCAGCa -3'
miRNA:   3'- guacuAGGCCUu-GCGGa-----AGgUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 13002 0.69 0.558205
Target:  5'- --cGAcCCGGAccagGCGgCUUCCgugaAGCAGCu -3'
miRNA:   3'- guaCUaGGCCU----UGCgGAAGG----UCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 33488 0.7 0.48205
Target:  5'- aCGUaAUCCGGAuCGCCgUUCAGCAuccGCg -3'
miRNA:   3'- -GUAcUAGGCCUuGCGGaAGGUCGU---CG- -5'
27997 3' -53.7 NC_005887.1 + 32274 0.7 0.468446
Target:  5'- gCAUGAUCCGGuccacacggggcgauCGUCgggCCAGcCGGCg -3'
miRNA:   3'- -GUACUAGGCCuu-------------GCGGaa-GGUC-GUCG- -5'
27997 3' -53.7 NC_005887.1 + 36405 0.74 0.278926
Target:  5'- gGUGGUCUGGuucauuugcgcacCGCCUUCCGcGCGGCc -3'
miRNA:   3'- gUACUAGGCCuu-----------GCGGAAGGU-CGUCG- -5'
27997 3' -53.7 NC_005887.1 + 31941 0.67 0.637374
Target:  5'- --cGA-CCGuAACGCCUUCgAGguGCc -3'
miRNA:   3'- guaCUaGGCcUUGCGGAAGgUCguCG- -5'
27997 3' -53.7 NC_005887.1 + 28731 0.67 0.637374
Target:  5'- aGUGcggCCGccgcGCGCCgcgcugCCAGCAGCg -3'
miRNA:   3'- gUACua-GGCcu--UGCGGaa----GGUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 26573 0.67 0.648747
Target:  5'- --cGAUCUGcuucuGCGCCUUCgCGGCcGCg -3'
miRNA:   3'- guaCUAGGCcu---UGCGGAAG-GUCGuCG- -5'
27997 3' -53.7 NC_005887.1 + 2529 0.67 0.660104
Target:  5'- --cGGcCCGucGCGCUUuaUCCAGCAGUg -3'
miRNA:   3'- guaCUaGGCcuUGCGGA--AGGUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 41459 0.67 0.660104
Target:  5'- --cGAagCCGaGGcCGCCUgacucgUCCGGCGGCg -3'
miRNA:   3'- guaCUa-GGC-CUuGCGGA------AGGUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 30135 0.66 0.69396
Target:  5'- gCGUGAaaUCCGGcGCGCCcggc-GCGGCg -3'
miRNA:   3'- -GUACU--AGGCCuUGCGGaagguCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 40838 0.66 0.705134
Target:  5'- --aGGUCCGGGuACGUgUUCCgcacGGCcGCg -3'
miRNA:   3'- guaCUAGGCCU-UGCGgAAGG----UCGuCG- -5'
27997 3' -53.7 NC_005887.1 + 40548 0.66 0.716231
Target:  5'- --aGGUCggCGGcACGuCCUUCgGGUAGCg -3'
miRNA:   3'- guaCUAG--GCCuUGC-GGAAGgUCGUCG- -5'
27997 3' -53.7 NC_005887.1 + 40911 0.99 0.005431
Target:  5'- aCAUGAU-CGGAACGCCUUCCAGCAGCu -3'
miRNA:   3'- -GUACUAgGCCUUGCGGAAGGUCGUCG- -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.