miRNA display CGI


Results 1 - 13 of 13 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
16651 3' -45.8 NC_004156.1 + 32644 0.66 0.999999
Target:  5'- aGUCCAAUCA----GUCCAACUuuaCGaGCa -3'
miRNA:   3'- -UAGGUUAGUauucUAGGUUGA---GCaCG- -5'
16651 3' -45.8 NC_004156.1 + 132731 0.66 0.999998
Target:  5'- uAUCCGugcCAUGuua-CCAAUUCGUGCa -3'
miRNA:   3'- -UAGGUua-GUAUucuaGGUUGAGCACG- -5'
16651 3' -45.8 NC_004156.1 + 117069 0.67 0.99999
Target:  5'- -gUCAAUCGgcAAGAgUCCAcUUCGUGCa -3'
miRNA:   3'- uaGGUUAGUa-UUCU-AGGUuGAGCACG- -5'
16651 3' -45.8 NC_004156.1 + 109087 0.68 0.999975
Target:  5'- -aCUAAUCAUGGacGGUCaGACuUCGUGCa -3'
miRNA:   3'- uaGGUUAGUAUU--CUAGgUUG-AGCACG- -5'
16651 3' -45.8 NC_004156.1 + 110310 0.68 0.999966
Target:  5'- uGUCCGG-CAUGGGAgugUCCGuCUCGUagGCg -3'
miRNA:   3'- -UAGGUUaGUAUUCU---AGGUuGAGCA--CG- -5'
16651 3' -45.8 NC_004156.1 + 104232 0.7 0.999705
Target:  5'- -gCCAGUCuuc--GUgCAACUCGUGCa -3'
miRNA:   3'- uaGGUUAGuauucUAgGUUGAGCACG- -5'
16651 3' -45.8 NC_004156.1 + 191521 0.71 0.999175
Target:  5'- gAUCCAgcGUCuguaggaugagccgaAUGAGAUCCAccucaUCGUGCa -3'
miRNA:   3'- -UAGGU--UAG---------------UAUUCUAGGUug---AGCACG- -5'
16651 3' -45.8 NC_004156.1 + 143661 0.71 0.998662
Target:  5'- -aCCGAUCGgcuGAcUCCGucuACUCGUGCc -3'
miRNA:   3'- uaGGUUAGUauuCU-AGGU---UGAGCACG- -5'
16651 3' -45.8 NC_004156.1 + 199486 0.71 0.998662
Target:  5'- cUCCGA--GUAGGuuUCCGACUCGUuGCa -3'
miRNA:   3'- uAGGUUagUAUUCu-AGGUUGAGCA-CG- -5'
16651 3' -45.8 NC_004156.1 + 155709 0.72 0.996641
Target:  5'- -aCCAAuUCAUuuguuuuGGGAUCguACUCGUGCu -3'
miRNA:   3'- uaGGUU-AGUA-------UUCUAGguUGAGCACG- -5'
16651 3' -45.8 NC_004156.1 + 106592 0.73 0.993778
Target:  5'- aGUCCAGUCugAGGAUCCAcCUUGUacgGCa -3'
miRNA:   3'- -UAGGUUAGuaUUCUAGGUuGAGCA---CG- -5'
16651 3' -45.8 NC_004156.1 + 175357 0.77 0.954172
Target:  5'- cGUCCGAUCAguuuGAUCCGuugacgguGCUCGUGg -3'
miRNA:   3'- -UAGGUUAGUauu-CUAGGU--------UGAGCACg -5'
16651 3' -45.8 NC_004156.1 + 143961 1.13 0.024622
Target:  5'- cAUCCAAUCAUAAGAUCCAACUCGUGCa -3'
miRNA:   3'- -UAGGUUAGUAUUCUAGGUUGAGCACG- -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.