miRNA display CGI


Results 1 - 20 of 23 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
22320 5' -49.5 NC_005045.1 + 14380 0.66 0.930453
Target:  5'- uCGGcaACAACGaaAAGUCCAAGAccaaGCUg- -3'
miRNA:   3'- -GCC--UGUUGCcgUUCAGGUUCU----UGAag -5'
22320 5' -49.5 NC_005045.1 + 16082 0.66 0.926857
Target:  5'- aGGGCAaacucugcccgcucuGCGGCAAGcCCAucGACaUCa -3'
miRNA:   3'- gCCUGU---------------UGCCGUUCaGGUucUUGaAG- -5'
22320 5' -49.5 NC_005045.1 + 39034 0.66 0.924397
Target:  5'- gCGGGCGaagcugacACGGC-AGUCgCAGGAG-UUCa -3'
miRNA:   3'- -GCCUGU--------UGCCGuUCAG-GUUCUUgAAG- -5'
22320 5' -49.5 NC_005045.1 + 33007 0.66 0.918029
Target:  5'- uCGGACAguugccgaccgGCGGCGcGGUCUu---GCUUCa -3'
miRNA:   3'- -GCCUGU-----------UGCCGU-UCAGGuucuUGAAG- -5'
22320 5' -49.5 NC_005045.1 + 909 0.66 0.904359
Target:  5'- -cGugGGCGGCAGGUCUGuAGAG-UUCg -3'
miRNA:   3'- gcCugUUGCCGUUCAGGU-UCUUgAAG- -5'
22320 5' -49.5 NC_005045.1 + 22806 0.67 0.896318
Target:  5'- aGGcCAGCGGCGacuggagguucucGG-CCAAGAGCg-- -3'
miRNA:   3'- gCCuGUUGCCGU-------------UCaGGUUCUUGaag -5'
22320 5' -49.5 NC_005045.1 + 11646 0.67 0.88869
Target:  5'- aGGugGACGGCAucaagaugcugugGGaCCAGGGugUgcUCa -3'
miRNA:   3'- gCCugUUGCCGU-------------UCaGGUUCUugA--AG- -5'
22320 5' -49.5 NC_005045.1 + 23529 0.67 0.881573
Target:  5'- cCGG-CGGCGGCGGGacuUCCAgguucucgggaAGAACUg- -3'
miRNA:   3'- -GCCuGUUGCCGUUC---AGGU-----------UCUUGAag -5'
22320 5' -49.5 NC_005045.1 + 3844 0.67 0.881573
Target:  5'- gCGGACAAuacCGGCGGGcaCCGcGAACUg- -3'
miRNA:   3'- -GCCUGUU---GCCGUUCa-GGUuCUUGAag -5'
22320 5' -49.5 NC_005045.1 + 17071 0.68 0.856183
Target:  5'- uCGcGGCGGCGGCAucuuGUUCAGGAAg--- -3'
miRNA:   3'- -GC-CUGUUGCCGUu---CAGGUUCUUgaag -5'
22320 5' -49.5 NC_005045.1 + 2704 0.68 0.850811
Target:  5'- aGGGCAGCGGCcagguuaaacuccuGGUCCA-GcGCUUUc -3'
miRNA:   3'- gCCUGUUGCCGu-------------UCAGGUuCuUGAAG- -5'
22320 5' -49.5 NC_005045.1 + 16609 0.68 0.828411
Target:  5'- aGGAacGCGGCAAGUacgCCAAGAAg--- -3'
miRNA:   3'- gCCUguUGCCGUUCA---GGUUCUUgaag -5'
22320 5' -49.5 NC_005045.1 + 9665 0.68 0.818672
Target:  5'- cCGGACGAaGcGCGGGUCCAGGGu---- -3'
miRNA:   3'- -GCCUGUUgC-CGUUCAGGUUCUugaag -5'
22320 5' -49.5 NC_005045.1 + 37353 0.68 0.818672
Target:  5'- cCGGACAauaACGGCcAGaCCAAGAccgccuACUUg -3'
miRNA:   3'- -GCCUGU---UGCCGuUCaGGUUCU------UGAAg -5'
22320 5' -49.5 NC_005045.1 + 11035 0.69 0.798541
Target:  5'- cCGGGgAACaGCAGGUUCAAGGG-UUCg -3'
miRNA:   3'- -GCCUgUUGcCGUUCAGGUUCUUgAAG- -5'
22320 5' -49.5 NC_005045.1 + 30057 0.69 0.792344
Target:  5'- gGGACcuuccccaagaccuACGGCGAGUCCGuGGGCa-- -3'
miRNA:   3'- gCCUGu-------------UGCCGUUCAGGUuCUUGaag -5'
22320 5' -49.5 NC_005045.1 + 18607 0.7 0.756024
Target:  5'- aGGGCGggGCGGCAcgagcGUCCAccuGGAGCcgUCg -3'
miRNA:   3'- gCCUGU--UGCCGUu----CAGGU---UCUUGa-AG- -5'
22320 5' -49.5 NC_005045.1 + 33734 0.7 0.71122
Target:  5'- uGGuCGGCGGCAGGUUCGGGucuACg-- -3'
miRNA:   3'- gCCuGUUGCCGUUCAGGUUCu--UGaag -5'
22320 5' -49.5 NC_005045.1 + 30653 0.72 0.60654
Target:  5'- -uGGCGGCGGCGAucUCCAgaAGGGCUUCg -3'
miRNA:   3'- gcCUGUUGCCGUUc-AGGU--UCUUGAAG- -5'
22320 5' -49.5 NC_005045.1 + 24334 0.72 0.594876
Target:  5'- uGGGCAACGuCGAGgCCAAGGGCcgUCg -3'
miRNA:   3'- gCCUGUUGCcGUUCaGGUUCUUGa-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.