miRNA display CGI


Results 1 - 20 of 32 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
11607 3' -56.1 NC_003085.1 + 12704 0.66 0.63652
Target:  5'- gCCGACg-GcGAGGCCGGCGgccgaGGGgAGGu -3'
miRNA:   3'- -GGUUGgaC-CUCCGGUCGCa----CCUgUUC- -5'
11607 3' -56.1 NC_003085.1 + 11601 0.68 0.507538
Target:  5'- uCCGACguCUGGccGGCCAGCGcaggcagcgcuaccaGGGCAAGg -3'
miRNA:   3'- -GGUUG--GACCu-CCGGUCGCa--------------CCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 45698 0.68 0.506493
Target:  5'- aCAGUCUGGuGGCCAgGgGUGGuuuCAAGg -3'
miRNA:   3'- gGUUGGACCuCCGGU-CgCACCu--GUUC- -5'
11607 3' -56.1 NC_003085.1 + 14035 0.73 0.283759
Target:  5'- gCCGACaUUGGAGGCgAGCG-GGAUGAc -3'
miRNA:   3'- -GGUUG-GACCUCCGgUCGCaCCUGUUc -5'
11607 3' -56.1 NC_003085.1 + 14893 0.7 0.43011
Target:  5'- uUCAACCUGGcugugcggcgcacgcGGGCCGGC-UGGugGc- -3'
miRNA:   3'- -GGUUGGACC---------------UCCGGUCGcACCugUuc -5'
11607 3' -56.1 NC_003085.1 + 4412 0.67 0.592475
Target:  5'- aCAGCCggcggaGGAGGCUGGCGacUGG-CAGa -3'
miRNA:   3'- gGUUGGa-----CCUCCGGUCGC--ACCuGUUc -5'
11607 3' -56.1 NC_003085.1 + 48760 0.7 0.404638
Target:  5'- -gGACCUGcucaggccgcgcccGAGGCCGGaCGcgGGACAGGu -3'
miRNA:   3'- ggUUGGAC--------------CUCCGGUC-GCa-CCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 7746 0.7 0.39819
Target:  5'- gCCGAagUUGGAGGCCgugaAGCGUGaGCGAGc -3'
miRNA:   3'- -GGUUg-GACCUCCGG----UCGCACcUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 9260 0.71 0.345711
Target:  5'- gCCAGCCagGuGAGGUUGGCGgGGAUGAGg -3'
miRNA:   3'- -GGUUGGa-C-CUCCGGUCGCaCCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 18134 0.67 0.592475
Target:  5'- gCCGGCCUGGgacgucugcugAGGCUucGGUGUcGGGCGc- -3'
miRNA:   3'- -GGUUGGACC-----------UCCGG--UCGCA-CCUGUuc -5'
11607 3' -56.1 NC_003085.1 + 9173 0.66 0.62549
Target:  5'- gCGACgCUGcccAGGCCGGCGcaGACGAGg -3'
miRNA:   3'- gGUUG-GACc--UCCGGUCGCacCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 46696 0.66 0.657456
Target:  5'- gCCGcuGCCUGcuuccGGCCAGCGgaguccuUGGGCAGc -3'
miRNA:   3'- -GGU--UGGACcu---CCGGUCGC-------ACCUGUUc -5'
11607 3' -56.1 NC_003085.1 + 42541 0.66 0.62549
Target:  5'- cCCGcuucGCCUc--GGCCAGCGcgcGGGCGAGg -3'
miRNA:   3'- -GGU----UGGAccuCCGGUCGCa--CCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 15186 0.67 0.589186
Target:  5'- cCCGGCUgagccGGuGcGCCAGCGccgcgccgcggaagUGGGCGAGg -3'
miRNA:   3'- -GGUUGGa----CCuC-CGGUCGC--------------ACCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 43499 0.67 0.55976
Target:  5'- cCCAccGCCUccaGcAGcCCGGCGUGGACGGGa -3'
miRNA:   3'- -GGU--UGGA---CcUCcGGUCGCACCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 31383 0.68 0.518042
Target:  5'- cCCGGCCgcaaaGAGGCCAGCcgcacguacucgaaGGACGGGa -3'
miRNA:   3'- -GGUUGGac---CUCCGGUCGca------------CCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 35713 0.68 0.506493
Target:  5'- gUCAACuUUGGcGGCCacGGCGaGGGCAGGg -3'
miRNA:   3'- -GGUUG-GACCuCCGG--UCGCaCCUGUUC- -5'
11607 3' -56.1 NC_003085.1 + 18456 0.69 0.455507
Target:  5'- aCGuCCUGGAGGagcGCGUGGACu-- -3'
miRNA:   3'- gGUuGGACCUCCgguCGCACCUGuuc -5'
11607 3' -56.1 NC_003085.1 + 31985 0.7 0.426276
Target:  5'- cCCGuuacGCCUGG-GGCUGGCGcugccucccuUGGACAAc -3'
miRNA:   3'- -GGU----UGGACCuCCGGUCGC----------ACCUGUUc -5'
11607 3' -56.1 NC_003085.1 + 14676 0.71 0.354104
Target:  5'- -gGACUUGGAGGCgCcguGGCGcUGGACGAa -3'
miRNA:   3'- ggUUGGACCUCCG-G---UCGC-ACCUGUUc -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.