miRNA display CGI


Results 1 - 20 of 29 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
7192 5' -54.7 NC_001900.1 + 1064 0.71 0.437002
Target:  5'- cCGACGCaugggcggaagagGAUCcgCCGGUagCGGCGGUGCc -3'
miRNA:   3'- -GCUGCG-------------CUAGa-GGCUAg-GUCGUCACG- -5'
7192 5' -54.7 NC_001900.1 + 2016 0.72 0.40934
Target:  5'- gGGCGCGuGUCaUCCGAgacUUCAGCGacGUGCa -3'
miRNA:   3'- gCUGCGC-UAG-AGGCU---AGGUCGU--CACG- -5'
7192 5' -54.7 NC_001900.1 + 3538 0.71 0.418756
Target:  5'- uCGACGCGGcgCUCgGggCCGGUaacggccuGGUGCa -3'
miRNA:   3'- -GCUGCGCUa-GAGgCuaGGUCG--------UCACG- -5'
7192 5' -54.7 NC_001900.1 + 3794 0.76 0.231797
Target:  5'- aCGACGCGcgugcguUCUCCGuagCCAGCGGaGCc -3'
miRNA:   3'- -GCUGCGCu------AGAGGCua-GGUCGUCaCG- -5'
7192 5' -54.7 NC_001900.1 + 10230 0.66 0.726784
Target:  5'- aGaACGCGAUCUUCG-----GCGGUGCg -3'
miRNA:   3'- gC-UGCGCUAGAGGCuagguCGUCACG- -5'
7192 5' -54.7 NC_001900.1 + 10405 0.68 0.606292
Target:  5'- gGGCGUGAUC-CCGcgUgAGCGG-GCu -3'
miRNA:   3'- gCUGCGCUAGaGGCuaGgUCGUCaCG- -5'
7192 5' -54.7 NC_001900.1 + 10587 0.67 0.661538
Target:  5'- uCGACGCGAUUaCCGc-UgAGCuGUGCg -3'
miRNA:   3'- -GCUGCGCUAGaGGCuaGgUCGuCACG- -5'
7192 5' -54.7 NC_001900.1 + 14234 0.66 0.704211
Target:  5'- aGAUGCugaccgaGGUCUCCGAgaUCCugAGcCGGUGUg -3'
miRNA:   3'- gCUGCG-------CUAGAGGCU--AGG--UC-GUCACG- -5'
7192 5' -54.7 NC_001900.1 + 14795 0.71 0.427342
Target:  5'- uGACGCGGUUcCUGAUCCgggcgacguucucAGCGGUcGCu -3'
miRNA:   3'- gCUGCGCUAGaGGCUAGG-------------UCGUCA-CG- -5'
7192 5' -54.7 NC_001900.1 + 15439 0.69 0.562434
Target:  5'- aCGACGCGAUCgagcugCCGAUCgAugaccuugccGCAcUGCc -3'
miRNA:   3'- -GCUGCGCUAGa-----GGCUAGgU----------CGUcACG- -5'
7192 5' -54.7 NC_001900.1 + 18153 0.75 0.266687
Target:  5'- uCGGCGCaGUCgccgagugggucggcUCCuGGUCCAGCGGUGUg -3'
miRNA:   3'- -GCUGCGcUAG---------------AGG-CUAGGUCGUCACG- -5'
7192 5' -54.7 NC_001900.1 + 18541 0.66 0.726784
Target:  5'- gGACaCGGUCUUCacggcccgGAUCU-GCAGUGCg -3'
miRNA:   3'- gCUGcGCUAGAGG--------CUAGGuCGUCACG- -5'
7192 5' -54.7 NC_001900.1 + 19847 0.69 0.54943
Target:  5'- cCGACGCGAggagcagaucagCUCCGAgUCgGGCuccccGGUGUg -3'
miRNA:   3'- -GCUGCGCUa-----------GAGGCU-AGgUCG-----UCACG- -5'
7192 5' -54.7 NC_001900.1 + 21069 0.71 0.437975
Target:  5'- aCGGCGUGAUCUUCGugcccgCCGGgGGcgGCg -3'
miRNA:   3'- -GCUGCGCUAGAGGCua----GGUCgUCa-CG- -5'
7192 5' -54.7 NC_001900.1 + 24244 0.65 0.757243
Target:  5'- aGugGCagcacugGGUCUCgGAgCCGugaacGCAGUGCg -3'
miRNA:   3'- gCugCG-------CUAGAGgCUaGGU-----CGUCACG- -5'
7192 5' -54.7 NC_001900.1 + 24500 0.69 0.562434
Target:  5'- uCGACcCGGUgcugaCUCCGGUCaCGGCGGUcgGCg -3'
miRNA:   3'- -GCUGcGCUA-----GAGGCUAG-GUCGUCA--CG- -5'
7192 5' -54.7 NC_001900.1 + 24572 0.69 0.551591
Target:  5'- uCGACGUGAuUCUCCucgGAgCUGGCGGUGg -3'
miRNA:   3'- -GCUGCGCU-AGAGG---CUaGGUCGUCACg -5'
7192 5' -54.7 NC_001900.1 + 27461 1.11 0.000773
Target:  5'- cCGACGCGAUCUCCGAUCCAGCAGUGCc -3'
miRNA:   3'- -GCUGCGCUAGAGGCUAGGUCGUCACG- -5'
7192 5' -54.7 NC_001900.1 + 30984 0.67 0.661538
Target:  5'- aCGACGCGAUggaCGcgCCAGCc-UGCa -3'
miRNA:   3'- -GCUGCGCUAgagGCuaGGUCGucACG- -5'
7192 5' -54.7 NC_001900.1 + 32018 0.66 0.726784
Target:  5'- aGACgGCGGUCUuggCCGcuUCCAGCGcggGCa -3'
miRNA:   3'- gCUG-CGCUAGA---GGCu-AGGUCGUca-CG- -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.