miRNA display CGI


Results 1 - 20 of 44 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
13429 3' -62 NC_003409.1 + 9813 0.69 0.438371
Target:  5'- aGGCCAaacuGGCGAGCACuCAcGUCCCUAa -3'
miRNA:   3'- -UCGGUggu-CUGCUCGUG-GU-CGGGGGU- -5'
13429 3' -62 NC_003409.1 + 16978 0.74 0.199604
Target:  5'- uGCCACCGGACGcAGUuagguguCCGGUUCCCAc -3'
miRNA:   3'- uCGGUGGUCUGC-UCGu------GGUCGGGGGU- -5'
13429 3' -62 NC_003409.1 + 18146 0.71 0.318609
Target:  5'- uGGCCagggGCCAG-UGAGCGCCucccgguacaAGUCCCCAc -3'
miRNA:   3'- -UCGG----UGGUCuGCUCGUGG----------UCGGGGGU- -5'
13429 3' -62 NC_003409.1 + 24208 0.72 0.277446
Target:  5'- cGCCAgCGGugG-GCGgggccccauccucCCGGCCCCCAu -3'
miRNA:   3'- uCGGUgGUCugCuCGU-------------GGUCGGGGGU- -5'
13429 3' -62 NC_003409.1 + 30668 0.67 0.540746
Target:  5'- cGCCuuCAGGCcu-CGCCAGCCUCCGc -3'
miRNA:   3'- uCGGugGUCUGcucGUGGUCGGGGGU- -5'
13429 3' -62 NC_003409.1 + 33004 0.67 0.511869
Target:  5'- cAGCCugCAGGgGAGCACac-UUCCCAg -3'
miRNA:   3'- -UCGGugGUCUgCUCGUGgucGGGGGU- -5'
13429 3' -62 NC_003409.1 + 33044 0.66 0.57015
Target:  5'- cGCUGCCccaaaAGGCGAgGCAgUAGCCCgCCGc -3'
miRNA:   3'- uCGGUGG-----UCUGCU-CGUgGUCGGG-GGU- -5'
13429 3' -62 NC_003409.1 + 33485 0.67 0.502383
Target:  5'- cGCUgcuCCAGGCGAGaa-CAGCCCuCCGc -3'
miRNA:   3'- uCGGu--GGUCUGCUCgugGUCGGG-GGU- -5'
13429 3' -62 NC_003409.1 + 42883 0.67 0.521428
Target:  5'- aGGUCGCCuccauGGC-AGCGCUcgagGGCCCCCu -3'
miRNA:   3'- -UCGGUGGu----CUGcUCGUGG----UCGGGGGu -5'
13429 3' -62 NC_003409.1 + 51771 0.76 0.152165
Target:  5'- cGCCGCCAGA-GGGCGCCguAGCCCaCCc -3'
miRNA:   3'- uCGGUGGUCUgCUCGUGG--UCGGG-GGu -5'
13429 3' -62 NC_003409.1 + 52148 0.66 0.599929
Target:  5'- gGGUgGCCuguGGCGugugcGCGCUGGCCCCUu -3'
miRNA:   3'- -UCGgUGGu--CUGCu----CGUGGUCGGGGGu -5'
13429 3' -62 NC_003409.1 + 52158 0.7 0.37129
Target:  5'- gAGCUucCCAGAaGAGC-CCGuGCCCCCGc -3'
miRNA:   3'- -UCGGu-GGUCUgCUCGuGGU-CGGGGGU- -5'
13429 3' -62 NC_003409.1 + 52431 0.67 0.553432
Target:  5'- uGGCCGCCacgccugcuggauGGACGuGUuaggauuaugggaaaGCC-GCCCCCAc -3'
miRNA:   3'- -UCGGUGG-------------UCUGCuCG---------------UGGuCGGGGGU- -5'
13429 3' -62 NC_003409.1 + 52551 0.68 0.446344
Target:  5'- cAGCUcuuauCCAGGCacuAGCcuccgaaGCCAGCCCCCGu -3'
miRNA:   3'- -UCGGu----GGUCUGc--UCG-------UGGUCGGGGGU- -5'
13429 3' -62 NC_003409.1 + 60155 0.66 0.589971
Target:  5'- uGGCCGCCAcGuACGAGgGCCuuGGUuuCCCCu -3'
miRNA:   3'- -UCGGUGGU-C-UGCUCgUGG--UCG--GGGGu -5'
13429 3' -62 NC_003409.1 + 64258 0.7 0.387394
Target:  5'- uGUCACCGGACggcaGAGCacgcaaaacuuuGCCAGCUCCUg -3'
miRNA:   3'- uCGGUGGUCUG----CUCG------------UGGUCGGGGGu -5'
13429 3' -62 NC_003409.1 + 68255 0.7 0.348004
Target:  5'- aGGCCucugGCCAGACGGGC-CCAuaCgCCCAa -3'
miRNA:   3'- -UCGG----UGGUCUGCUCGuGGUcgG-GGGU- -5'
13429 3' -62 NC_003409.1 + 73121 0.74 0.209506
Target:  5'- gGGCCuccgauugCAGACGAGuCGCCuccaGGCCCCCAg -3'
miRNA:   3'- -UCGGug------GUCUGCUC-GUGG----UCGGGGGU- -5'
13429 3' -62 NC_003409.1 + 78444 0.74 0.214614
Target:  5'- cGGCUACCGGGCu-GCGCCAGCcacggcugCCCCGa -3'
miRNA:   3'- -UCGGUGGUCUGcuCGUGGUCG--------GGGGU- -5'
13429 3' -62 NC_003409.1 + 78686 0.67 0.550496
Target:  5'- cGGCUcuaaaacCCAGACGAcC-CCAGCCCCUu -3'
miRNA:   3'- -UCGGu------GGUCUGCUcGuGGUCGGGGGu -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.