miRNA display CGI


Results 1 - 20 of 22 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
18640 3' -53.3 NC_004682.1 + 9546 0.66 0.819098
Target:  5'- --gGCGUCGACCccgAGACCggC-CAGAc -3'
miRNA:   3'- ggaUGCAGCUGG---UCUGGaaGcGUCUu -5'
18640 3' -53.3 NC_004682.1 + 38494 0.66 0.799846
Target:  5'- --gGCGUCGAUCuccCCUUCGguGAu -3'
miRNA:   3'- ggaUGCAGCUGGucuGGAAGCguCUu -5'
18640 3' -53.3 NC_004682.1 + 22883 0.66 0.799846
Target:  5'- gCCguCGUCGGCCugguGGCCUUCauccugggcaaGCAGAu -3'
miRNA:   3'- -GGauGCAGCUGGu---CUGGAAG-----------CGUCUu -5'
18640 3' -53.3 NC_004682.1 + 27014 0.66 0.769631
Target:  5'- gUCUcGCGUCGACCGGAacaugcggucgaUCUUCG-AGAAg -3'
miRNA:   3'- -GGA-UGCAGCUGGUCU------------GGAAGCgUCUU- -5'
18640 3' -53.3 NC_004682.1 + 32214 0.66 0.769631
Target:  5'- cUCUGCG-CGGCCAG-CUUUCGCu--- -3'
miRNA:   3'- -GGAUGCaGCUGGUCuGGAAGCGucuu -5'
18640 3' -53.3 NC_004682.1 + 8381 0.66 0.769631
Target:  5'- gCgUACGUCGACCaguggggccgGGACUUcCGCAaGAAg -3'
miRNA:   3'- -GgAUGCAGCUGG----------UCUGGAaGCGU-CUU- -5'
18640 3' -53.3 NC_004682.1 + 6429 0.66 0.768599
Target:  5'- cCCgauccCGUCGuccgcguagcggaACCGGGCCUucucuUCGCGGAGa -3'
miRNA:   3'- -GGau---GCAGC-------------UGGUCUGGA-----AGCGUCUU- -5'
18640 3' -53.3 NC_004682.1 + 8962 0.67 0.738093
Target:  5'- uCCUGCG-CGGCCAG-CUcgCGCGGu- -3'
miRNA:   3'- -GGAUGCaGCUGGUCuGGaaGCGUCuu -5'
18640 3' -53.3 NC_004682.1 + 13524 0.67 0.727342
Target:  5'- -gUACGUCGGCacgaCGGGCCga-GCAGGAc -3'
miRNA:   3'- ggAUGCAGCUG----GUCUGGaagCGUCUU- -5'
18640 3' -53.3 NC_004682.1 + 41428 0.67 0.727342
Target:  5'- uCCggugACGUgGugCAGGCCgaccaCGCAGGc -3'
miRNA:   3'- -GGa---UGCAgCugGUCUGGaa---GCGUCUu -5'
18640 3' -53.3 NC_004682.1 + 32833 0.67 0.713221
Target:  5'- cCCggcGCGUCGAUCAGAuCCUugaccgcuggcgguUCGUGGAc -3'
miRNA:   3'- -GGa--UGCAGCUGGUCU-GGA--------------AGCGUCUu -5'
18640 3' -53.3 NC_004682.1 + 12413 0.68 0.683475
Target:  5'- uCCUucgACGUgacCGACCAGGCCacccuggacUUCGguGAGg -3'
miRNA:   3'- -GGA---UGCA---GCUGGUCUGG---------AAGCguCUU- -5'
18640 3' -53.3 NC_004682.1 + 37431 0.69 0.649997
Target:  5'- gCCUuCGUgGAUgccgaaCGGGCCUUCGUAGAc -3'
miRNA:   3'- -GGAuGCAgCUG------GUCUGGAAGCGUCUu -5'
18640 3' -53.3 NC_004682.1 + 34526 0.69 0.638789
Target:  5'- aCCU-CuUCGGCCAGACUc-CGCAGGAg -3'
miRNA:   3'- -GGAuGcAGCUGGUCUGGaaGCGUCUU- -5'
18640 3' -53.3 NC_004682.1 + 38801 0.69 0.638789
Target:  5'- aCCUugGUCGucucgGCCAGGuagcCCUUgaaCGCAGAc -3'
miRNA:   3'- -GGAugCAGC-----UGGUCU----GGAA---GCGUCUu -5'
18640 3' -53.3 NC_004682.1 + 2765 0.69 0.627575
Target:  5'- uCC-GCGUCGGcacCCAGAUCccgUCGCGGAu -3'
miRNA:   3'- -GGaUGCAGCU---GGUCUGGa--AGCGUCUu -5'
18640 3' -53.3 NC_004682.1 + 42430 0.69 0.593997
Target:  5'- --cGCGUUGACCuGGAUCUUCuuGCGGAAg -3'
miRNA:   3'- ggaUGCAGCUGG-UCUGGAAG--CGUCUU- -5'
18640 3' -53.3 NC_004682.1 + 46148 0.7 0.549733
Target:  5'- aCCUGC-UCGAUCAGGCCgaCGUAGu- -3'
miRNA:   3'- -GGAUGcAGCUGGUCUGGaaGCGUCuu -5'
18640 3' -53.3 NC_004682.1 + 10821 0.71 0.495964
Target:  5'- gCUACgGUCGGCCAccgagggccucGGCCUcgCGCAGAc -3'
miRNA:   3'- gGAUG-CAGCUGGU-----------CUGGAa-GCGUCUu -5'
18640 3' -53.3 NC_004682.1 + 28203 0.72 0.444702
Target:  5'- uCCggcgGCGUCGAUCAGcuuucgacaGCCgUCGCAGGGg -3'
miRNA:   3'- -GGa---UGCAGCUGGUC---------UGGaAGCGUCUU- -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.