miRNA display CGI


Results 1 - 20 of 99 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
17003 3' -56.9 NC_004333.2 + 44201 1.09 0.000553
Target:  5'- aACGCCGCCAACAUCGAGACGCUGCUCu -3'
miRNA:   3'- -UGCGGCGGUUGUAGCUCUGCGACGAG- -5'
17003 3' -56.9 NC_004333.2 + 29761 0.87 0.022222
Target:  5'- gACGCCGCCGAUcgCGAGGCGUUGCg- -3'
miRNA:   3'- -UGCGGCGGUUGuaGCUCUGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 3261 0.81 0.060665
Target:  5'- gGCGCgCGCgAcGCAUCGAGACGCaGCUCg -3'
miRNA:   3'- -UGCG-GCGgU-UGUAGCUCUGCGaCGAG- -5'
17003 3' -56.9 NC_004333.2 + 42026 0.77 0.111138
Target:  5'- cGCGCgGCCAACGagCGGGGCG-UGCUCg -3'
miRNA:   3'- -UGCGgCGGUUGUa-GCUCUGCgACGAG- -5'
17003 3' -56.9 NC_004333.2 + 30783 0.76 0.147199
Target:  5'- cGCGCUGCgCgAGCAgcUCGAuGCGCUGCUCg -3'
miRNA:   3'- -UGCGGCG-G-UUGU--AGCUcUGCGACGAG- -5'
17003 3' -56.9 NC_004333.2 + 43076 0.76 0.147199
Target:  5'- gACGCCGC--ACAUCGAGACGCga-UCa -3'
miRNA:   3'- -UGCGGCGguUGUAGCUCUGCGacgAG- -5'
17003 3' -56.9 NC_004333.2 + 22765 0.75 0.164412
Target:  5'- cCGCCGCCGGCA-CGcugcAGGCGC-GCUCg -3'
miRNA:   3'- uGCGGCGGUUGUaGC----UCUGCGaCGAG- -5'
17003 3' -56.9 NC_004333.2 + 31105 0.75 0.164412
Target:  5'- gGC-CCGUCAGCGgcgCGAGuuGCUGCUCg -3'
miRNA:   3'- -UGcGGCGGUUGUa--GCUCugCGACGAG- -5'
17003 3' -56.9 NC_004333.2 + 20740 0.75 0.168989
Target:  5'- cGCGCUGCCgGACAUCGccGACGCgGCUg -3'
miRNA:   3'- -UGCGGCGG-UUGUAGCu-CUGCGaCGAg -5'
17003 3' -56.9 NC_004333.2 + 46065 0.75 0.168989
Target:  5'- aACG-CGCCGAguUCGAGGCGaUGCUCg -3'
miRNA:   3'- -UGCgGCGGUUguAGCUCUGCgACGAG- -5'
17003 3' -56.9 NC_004333.2 + 41418 0.75 0.17368
Target:  5'- cACG-CGCaCAugAUCGAacaGGCGCUGCUCg -3'
miRNA:   3'- -UGCgGCG-GUugUAGCU---CUGCGACGAG- -5'
17003 3' -56.9 NC_004333.2 + 39757 0.73 0.215542
Target:  5'- aACGUCGgCGGCAccguaUCGGcGACGUUGCUCg -3'
miRNA:   3'- -UGCGGCgGUUGU-----AGCU-CUGCGACGAG- -5'
17003 3' -56.9 NC_004333.2 + 9658 0.73 0.226679
Target:  5'- cGCGUCGCacaGAUcgacaaagaacguGUCGAGGCGCUGCg- -3'
miRNA:   3'- -UGCGGCGg--UUG-------------UAGCUCUGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 20584 0.72 0.242073
Target:  5'- gGCGCCGCgcuauuCGACGUCGGGcaucaccuuuacuuCGCUGUUCa -3'
miRNA:   3'- -UGCGGCG------GUUGUAGCUCu-------------GCGACGAG- -5'
17003 3' -56.9 NC_004333.2 + 45496 0.72 0.245895
Target:  5'- cCGCCGCCGGCGc---GACGCUGCa- -3'
miRNA:   3'- uGCGGCGGUUGUagcuCUGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 38988 0.71 0.286901
Target:  5'- -gGCCGaUCGACccgaacuggcauGUCGAGGCGCUGCa- -3'
miRNA:   3'- ugCGGC-GGUUG------------UAGCUCUGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 38402 0.71 0.294237
Target:  5'- gACGCCgGCCAcggucaagacgGCgAUCGAGACGCUuGC-Cg -3'
miRNA:   3'- -UGCGG-CGGU-----------UG-UAGCUCUGCGA-CGaG- -5'
17003 3' -56.9 NC_004333.2 + 32527 0.71 0.294237
Target:  5'- aGCGuUUGCCGACGUCGcgcGGCGC-GCUCg -3'
miRNA:   3'- -UGC-GGCGGUUGUAGCu--CUGCGaCGAG- -5'
17003 3' -56.9 NC_004333.2 + 360 0.71 0.301719
Target:  5'- aGCGCCGUCcGCAggCGGcGCGCUGCa- -3'
miRNA:   3'- -UGCGGCGGuUGUa-GCUcUGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 5528 0.71 0.301719
Target:  5'- -gGCUGCuCGACGg-GAGACGCUGCg- -3'
miRNA:   3'- ugCGGCG-GUUGUagCUCUGCGACGag -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.