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
25645 3' -56.5 NC_005337.1 + 29701 0.66 0.880388
Target:  5'- gGGCUCGUccgUCuCGGGG-UCGUaGAGCAc -3'
miRNA:   3'- -CUGAGCA---AGcGCCCCgAGCAgUUCGU- -5'
25645 3' -56.5 NC_005337.1 + 66317 0.66 0.873166
Target:  5'- aGCgccgCGgUCGCGGGcuggcgacacguGCUCGUgGAGCGc -3'
miRNA:   3'- cUGa---GCaAGCGCCC------------CGAGCAgUUCGU- -5'
25645 3' -56.5 NC_005337.1 + 64656 0.66 0.873166
Target:  5'- -uCUCGccgUgGCGGugcGGCUCGUCGAGgGg -3'
miRNA:   3'- cuGAGCa--AgCGCC---CCGAGCAGUUCgU- -5'
25645 3' -56.5 NC_005337.1 + 61392 0.66 0.850212
Target:  5'- aGCUCcgUCGCGGaGGCgugcaCGUCcAGCAg -3'
miRNA:   3'- cUGAGcaAGCGCC-CCGa----GCAGuUCGU- -5'
25645 3' -56.5 NC_005337.1 + 39954 0.66 0.850212
Target:  5'- -cCUCG--CGCGGGcGCUCGacgcauUCGAGCGc -3'
miRNA:   3'- cuGAGCaaGCGCCC-CGAGC------AGUUCGU- -5'
25645 3' -56.5 NC_005337.1 + 99105 0.67 0.833898
Target:  5'- cGCUCGUcgauagccUCGCGagccGGCUCGUCGcGCc -3'
miRNA:   3'- cUGAGCA--------AGCGCc---CCGAGCAGUuCGu -5'
25645 3' -56.5 NC_005337.1 + 42256 0.67 0.833898
Target:  5'- -uCUUGUUUGUGGGGagcaCGUUGAGCGc -3'
miRNA:   3'- cuGAGCAAGCGCCCCga--GCAGUUCGU- -5'
25645 3' -56.5 NC_005337.1 + 92400 0.67 0.825459
Target:  5'- cGACgUCGgggacgUGCuGGGGCUCGcgcaccugcUCGAGCAc -3'
miRNA:   3'- -CUG-AGCaa----GCG-CCCCGAGC---------AGUUCGU- -5'
25645 3' -56.5 NC_005337.1 + 10333 0.67 0.825459
Target:  5'- cGAC-CGgcUCGCGGGGCguggggaacgUCGUCAcGCc -3'
miRNA:   3'- -CUGaGCa-AGCGCCCCG----------AGCAGUuCGu -5'
25645 3' -56.5 NC_005337.1 + 103924 0.67 0.808054
Target:  5'- uGCUCcuGUcCGCGGGGCUgGUguaCGAGCc -3'
miRNA:   3'- cUGAG--CAaGCGCCCCGAgCA---GUUCGu -5'
25645 3' -56.5 NC_005337.1 + 131259 0.67 0.790004
Target:  5'- gGACUCGgaguccUUCGUGcGGCUCGUCucGUAc -3'
miRNA:   3'- -CUGAGC------AAGCGCcCCGAGCAGuuCGU- -5'
25645 3' -56.5 NC_005337.1 + 22095 0.68 0.771378
Target:  5'- uGCUCGU--GUGGGcguucCUCGUCAAGCGg -3'
miRNA:   3'- cUGAGCAagCGCCCc----GAGCAGUUCGU- -5'
25645 3' -56.5 NC_005337.1 + 86108 0.69 0.732691
Target:  5'- cACUCcggGUcccagcacUCGCGGGGCUCGUCcacguacgAGGCc -3'
miRNA:   3'- cUGAG---CA--------AGCGCCCCGAGCAG--------UUCGu -5'
25645 3' -56.5 NC_005337.1 + 130717 0.69 0.732691
Target:  5'- ---gCGUgCGUGGaGCUCGUCGAGCGc -3'
miRNA:   3'- cugaGCAaGCGCCcCGAGCAGUUCGU- -5'
25645 3' -56.5 NC_005337.1 + 51866 0.69 0.692591
Target:  5'- uGACUCGUucuucucguucgUCGCGGGGCUCccgacgaCGAGg- -3'
miRNA:   3'- -CUGAGCA------------AGCGCCCCGAGca-----GUUCgu -5'
25645 3' -56.5 NC_005337.1 + 68119 0.7 0.661947
Target:  5'- uACUCGgggUCGCGGGGC-CGgu-GGCc -3'
miRNA:   3'- cUGAGCa--AGCGCCCCGaGCaguUCGu -5'
25645 3' -56.5 NC_005337.1 + 6259 0.7 0.651673
Target:  5'- cGACUCGUcugCGCGGaGCaCGUCcAGCAg -3'
miRNA:   3'- -CUGAGCAa--GCGCCcCGaGCAGuUCGU- -5'
25645 3' -56.5 NC_005337.1 + 86622 0.7 0.631084
Target:  5'- uGC-CGggCGCcGGGCUCGUCAcAGCGa -3'
miRNA:   3'- cUGaGCaaGCGcCCCGAGCAGU-UCGU- -5'
25645 3' -56.5 NC_005337.1 + 70515 0.7 0.620786
Target:  5'- -cCUCGUagGCGGGGUugUCGUCcGGUAc -3'
miRNA:   3'- cuGAGCAagCGCCCCG--AGCAGuUCGU- -5'
25645 3' -56.5 NC_005337.1 + 24303 0.71 0.600226
Target:  5'- aGACUCGUUggacaCGCGGGacaUCGUCGacGGCAg -3'
miRNA:   3'- -CUGAGCAA-----GCGCCCcg-AGCAGU--UCGU- -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.