miRNA display CGI


Results 1 - 20 of 60 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
16446 3' -55.1 NC_004084.1 + 57634 0.67 0.695847
Target:  5'- cUCGAggucgCGCGUCGCcucGACgagcCGAUCGg- -3'
miRNA:   3'- -AGCUa----GCGCAGCGc--CUGa---GCUAGCag -5'
16446 3' -55.1 NC_004084.1 + 56472 0.66 0.77812
Target:  5'- aUGAUCGCGgggUCGUaGGCcCGGUCGUa -3'
miRNA:   3'- aGCUAGCGC---AGCGcCUGaGCUAGCAg -5'
16446 3' -55.1 NC_004084.1 + 56005 0.72 0.444559
Target:  5'- aCGAUCGCGUacuuUGCccucGACUCG-UCGUCg -3'
miRNA:   3'- aGCUAGCGCA----GCGc---CUGAGCuAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 54026 0.68 0.685182
Target:  5'- cCGAagUCGUGcUGCuuGGGCUgGAUCGUCu -3'
miRNA:   3'- aGCU--AGCGCaGCG--CCUGAgCUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 53923 0.69 0.606487
Target:  5'- cUCGAcauccugcaguuUCGUGUCG-GGcuucgccagcucgaACUCGAUCGUCc -3'
miRNA:   3'- -AGCU------------AGCGCAGCgCC--------------UGAGCUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 53311 0.7 0.535123
Target:  5'- gUUGAcccgGCGaUCGCGGGCUCGGUucaCGUCu -3'
miRNA:   3'- -AGCUag--CGC-AGCGCCUGAGCUA---GCAG- -5'
16446 3' -55.1 NC_004084.1 + 52176 0.7 0.511261
Target:  5'- gUCGAcCGCGUCGggaucgacgcuaucCGGAauCUCGAccUCGUCg -3'
miRNA:   3'- -AGCUaGCGCAGC--------------GCCU--GAGCU--AGCAG- -5'
16446 3' -55.1 NC_004084.1 + 51755 0.72 0.425603
Target:  5'- uUCG-UgGCGUCGuCGGGCUCu-UCGUCg -3'
miRNA:   3'- -AGCuAgCGCAGC-GCCUGAGcuAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 51540 0.72 0.429356
Target:  5'- uUCGAUCGCGUCGUGGcCagccaucaacgccucUCGGuUCGUg -3'
miRNA:   3'- -AGCUAGCGCAGCGCCuG---------------AGCU-AGCAg -5'
16446 3' -55.1 NC_004084.1 + 50537 0.71 0.493912
Target:  5'- -gGAUCGCGUCgaggaGCGGAgucucCUCGAUCauGUCc -3'
miRNA:   3'- agCUAGCGCAG-----CGCCU-----GAGCUAG--CAG- -5'
16446 3' -55.1 NC_004084.1 + 50160 0.67 0.695847
Target:  5'- gUCGAggaUGuCGUCaGCGGcgUCGAUCGUCu -3'
miRNA:   3'- -AGCUa--GC-GCAG-CGCCugAGCUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 49847 0.71 0.473854
Target:  5'- -aGGUCGCGcUCGCucaccuugucGGACUCGGUgaggaCGUCg -3'
miRNA:   3'- agCUAGCGC-AGCG----------CCUGAGCUA-----GCAG- -5'
16446 3' -55.1 NC_004084.1 + 49626 0.67 0.706453
Target:  5'- -aGAUCuCGUCGcCGGGCUCcGUCGa- -3'
miRNA:   3'- agCUAGcGCAGC-GCCUGAGcUAGCag -5'
16446 3' -55.1 NC_004084.1 + 49343 0.7 0.566805
Target:  5'- gCGAUCGUGUCGaGG---UGAUCGUCg -3'
miRNA:   3'- aGCUAGCGCAGCgCCugaGCUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 48985 0.68 0.652936
Target:  5'- gUCGAcgUCGCGgcccaucgCGCGguccGugUCGAUCGUg -3'
miRNA:   3'- -AGCU--AGCGCa-------GCGC----CugAGCUAGCAg -5'
16446 3' -55.1 NC_004084.1 + 47969 0.7 0.556183
Target:  5'- -gGAUCGCcUCGCGGGCUucCGGgauguuguucUCGUCc -3'
miRNA:   3'- agCUAGCGcAGCGCCUGA--GCU----------AGCAG- -5'
16446 3' -55.1 NC_004084.1 + 46276 0.67 0.706453
Target:  5'- aUCcAUCGCuucGUCGaCGGAgUCGuaGUCGUCg -3'
miRNA:   3'- -AGcUAGCG---CAGC-GCCUgAGC--UAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 45492 0.66 0.787861
Target:  5'- gUCGAUCaGCGUCuaccuggcCGGGC-CGGUCGg- -3'
miRNA:   3'- -AGCUAG-CGCAGc-------GCCUGaGCUAGCag -5'
16446 3' -55.1 NC_004084.1 + 45388 0.7 0.556183
Target:  5'- gUCGAUCGUccgGUCGUgaaGGuguuGCUCGAggUCGUCg -3'
miRNA:   3'- -AGCUAGCG---CAGCG---CC----UGAGCU--AGCAG- -5'
16446 3' -55.1 NC_004084.1 + 45018 0.69 0.598945
Target:  5'- aCGAUCGaGUCGCGGuucaGCUCGAacuggCGcUCg -3'
miRNA:   3'- aGCUAGCgCAGCGCC----UGAGCUa----GC-AG- -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.