miRNA display CGI


Results 1 - 15 of 15 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
28004 3' -56.4 NC_005887.1 + 40384 0.67 0.495488
Target:  5'- -cGCGcGaGGAaaucgUGAUGCCCggcacgGCCGACg -3'
miRNA:   3'- aaCGC-CaUCU-----GCUACGGGaa----CGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 40016 0.66 0.527792
Target:  5'- -cGCGGUGcgcaucauGGCGcgGCUCgaggcgGCCGGCc -3'
miRNA:   3'- aaCGCCAU--------CUGCuaCGGGaa----CGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 38844 1.08 0.000542
Target:  5'- gUUGCGGUAGACGAUGCCCUUGCCGACg -3'
miRNA:   3'- -AACGCCAUCUGCUACGGGAACGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 37434 0.67 0.453883
Target:  5'- gUGCGG-AGugGAgcgcgGCgCUUGCCuGCg -3'
miRNA:   3'- aACGCCaUCugCUa----CGgGAACGGcUG- -5'
28004 3' -56.4 NC_005887.1 + 35829 0.7 0.309063
Target:  5'- -gGCGG-GGGCGAUGCCgucaUUGCCGu- -3'
miRNA:   3'- aaCGCCaUCUGCUACGGg---AACGGCug -5'
28004 3' -56.4 NC_005887.1 + 30935 0.72 0.231671
Target:  5'- gUUGCGcucAGACGAUGCCUUggcggcGCCGGCc -3'
miRNA:   3'- -AACGCca-UCUGCUACGGGAa-----CGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 28830 0.71 0.286164
Target:  5'- -cGCGaucGUGGcGCGcAUGCCCgUGCCGGCg -3'
miRNA:   3'- aaCGC---CAUC-UGC-UACGGGaACGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 26098 0.67 0.491248
Target:  5'- -aGCucGgcGACGGUGCCCgugcgcucgccgGCCGGCg -3'
miRNA:   3'- aaCGc-CauCUGCUACGGGaa----------CGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 21044 0.74 0.18109
Target:  5'- -cGCGGUGGGCG-UGCCCgugaaUGUgGGCg -3'
miRNA:   3'- aaCGCCAUCUGCuACGGGa----ACGgCUG- -5'
28004 3' -56.4 NC_005887.1 + 17477 0.67 0.481769
Target:  5'- -cGCGGcaucggccgccgccUGGACGGUGaaugaCCUgaucGCCGACu -3'
miRNA:   3'- aaCGCC--------------AUCUGCUACg----GGAa---CGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 14126 0.7 0.333333
Target:  5'- -aGCGGgcagaaccAGAuCGAugUGCCCgaGCCGACg -3'
miRNA:   3'- aaCGCCa-------UCU-GCU--ACGGGaaCGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 13291 0.69 0.358971
Target:  5'- aUGCGGUugAGaACGAUGUaCCg-GCCGGCg -3'
miRNA:   3'- aACGCCA--UC-UGCUACG-GGaaCGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 5013 0.72 0.219488
Target:  5'- aUGCGGc-GAcCGAUGCCagUGCCGGCg -3'
miRNA:   3'- aACGCCauCU-GCUACGGgaACGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 2410 0.69 0.376814
Target:  5'- -cGCuGGcuucgAGGCGAaGCCCgcGCCGACg -3'
miRNA:   3'- aaCG-CCa----UCUGCUaCGGGaaCGGCUG- -5'
28004 3' -56.4 NC_005887.1 + 1085 0.71 0.278834
Target:  5'- -cGCaGGUcGACGgcGCCaUUGCCGACg -3'
miRNA:   3'- aaCG-CCAuCUGCuaCGGgAACGGCUG- -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.