miRNA display CGI


Results 1 - 20 of 138 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
16133 3' -57.6 NC_004065.1 + 139320 1.09 0.00348
Target:  5'- aCGACGGCGAGGAGCGCAGGAAACGCAu -3'
miRNA:   3'- -GCUGCCGCUCCUCGCGUCCUUUGCGU- -5'
16133 3' -57.6 NC_004065.1 + 70344 0.83 0.162466
Target:  5'- aCGGCGGCGAGGAGCGCcucGGguAUGCu -3'
miRNA:   3'- -GCUGCCGCUCCUCGCGu--CCuuUGCGu -5'
16133 3' -57.6 NC_004065.1 + 148873 0.83 0.174771
Target:  5'- gCGGCGGCGGGGGGCGaGGGGGACGa- -3'
miRNA:   3'- -GCUGCCGCUCCUCGCgUCCUUUGCgu -5'
16133 3' -57.6 NC_004065.1 + 130174 0.82 0.201888
Target:  5'- aCGGCGGCGAucGGGGCGCAGacgcuGAAACGCc -3'
miRNA:   3'- -GCUGCCGCU--CCUCGCGUC-----CUUUGCGu -5'
16133 3' -57.6 NC_004065.1 + 103707 0.8 0.249362
Target:  5'- gGGCGGCGGGGAGCGCcuGGcGGGCGUg -3'
miRNA:   3'- gCUGCCGCUCCUCGCGu-CC-UUUGCGu -5'
16133 3' -57.6 NC_004065.1 + 93604 0.79 0.285894
Target:  5'- uGACGGggaUGAGGGGgGcCAGGAGACGCAu -3'
miRNA:   3'- gCUGCC---GCUCCUCgC-GUCCUUUGCGU- -5'
16133 3' -57.6 NC_004065.1 + 62376 0.78 0.305688
Target:  5'- uGGCGGCGGGGgugguGGCgGCGGGGGugGCGg -3'
miRNA:   3'- gCUGCCGCUCC-----UCG-CGUCCUUugCGU- -5'
16133 3' -57.6 NC_004065.1 + 75490 0.78 0.312516
Target:  5'- gCGGCGGCGAGGAucaggGCGCAGuGAAuaGCGUu -3'
miRNA:   3'- -GCUGCCGCUCCU-----CGCGUC-CUU--UGCGu -5'
16133 3' -57.6 NC_004065.1 + 228993 0.78 0.325806
Target:  5'- aCGaACGGCGAgGGAGCGCGcGGAGcgagaucGCGCAc -3'
miRNA:   3'- -GC-UGCCGCU-CCUCGCGU-CCUU-------UGCGU- -5'
16133 3' -57.6 NC_004065.1 + 83582 0.77 0.387085
Target:  5'- gCGACGGCGGGGaAGC-CGGGGAagaagacggaGCGCGg -3'
miRNA:   3'- -GCUGCCGCUCC-UCGcGUCCUU----------UGCGU- -5'
16133 3' -57.6 NC_004065.1 + 211389 0.76 0.427663
Target:  5'- aGACGGCaGAGGuggcggaGGCGgGGGAAACGUg -3'
miRNA:   3'- gCUGCCG-CUCC-------UCGCgUCCUUUGCGu -5'
16133 3' -57.6 NC_004065.1 + 91794 0.75 0.44319
Target:  5'- aCGGCGGCGAGcgccucgacauccaGAGCGCGGucGAGACGUc -3'
miRNA:   3'- -GCUGCCGCUC--------------CUCGCGUC--CUUUGCGu -5'
16133 3' -57.6 NC_004065.1 + 181131 0.75 0.454598
Target:  5'- gCGGCGGCGGGGAGagaaaaCGUAGGGuaacaaccGCGCAc -3'
miRNA:   3'- -GCUGCCGCUCCUC------GCGUCCUu-------UGCGU- -5'
16133 3' -57.6 NC_004065.1 + 22165 0.75 0.46706
Target:  5'- uGACGGUGAGGGGCGguGGGuugAgaucggucucucugaACGCGu -3'
miRNA:   3'- gCUGCCGCUCCUCGCguCCU---U---------------UGCGU- -5'
16133 3' -57.6 NC_004065.1 + 136768 0.75 0.481515
Target:  5'- -uGCGGgGGGaGAGCGUGGGGGAUGCGg -3'
miRNA:   3'- gcUGCCgCUC-CUCGCGUCCUUUGCGU- -5'
16133 3' -57.6 NC_004065.1 + 91755 0.74 0.499882
Target:  5'- aGACGGCG-GGAGCGaCGGGGgcGAgGCu -3'
miRNA:   3'- gCUGCCGCuCCUCGC-GUCCU--UUgCGu -5'
16133 3' -57.6 NC_004065.1 + 42234 0.74 0.499882
Target:  5'- gGAuCGGCGGGGGGCGCgauAGGGggUGUc -3'
miRNA:   3'- gCU-GCCGCUCCUCGCG---UCCUuuGCGu -5'
16133 3' -57.6 NC_004065.1 + 48106 0.74 0.509181
Target:  5'- gCGGCGGCGGuGGcggcGGCGguGGGAccucGCGCAc -3'
miRNA:   3'- -GCUGCCGCU-CC----UCGCguCCUU----UGCGU- -5'
16133 3' -57.6 NC_004065.1 + 30122 0.74 0.518552
Target:  5'- cCGGCGGCcuGGGGAGgGCGGGugGCGgAg -3'
miRNA:   3'- -GCUGCCG--CUCCUCgCGUCCuuUGCgU- -5'
16133 3' -57.6 NC_004065.1 + 143064 0.74 0.518552
Target:  5'- ---gGGCGAGGGGCGCuucGGggGCGaCGa -3'
miRNA:   3'- gcugCCGCUCCUCGCGu--CCuuUGC-GU- -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.